Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold66
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4623749
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 850 characters in sequence are not A, C, G, or T
File 22 of 26
Found at i:3805513 original size:20 final size:20
Alignment explanation
Indices: 3805490--3805547 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
3805480 ATAATACCCA
*
3805490 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTCTTC
3805510 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
*
3805530 AATTTATCGATACATTCT
1 AATGTATCGATACATTCT
3805548 GTCCTCTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:3805581 original size:16 final size:16
Alignment explanation
Indices: 3805560--3805590 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3805550 CCTCTTACCC
3805560 AAATGTATCGATACAA
1 AAATGTATCGATACAA
3805576 AAATGTATCGATACA
1 AAATGTATCGATACA
3805591 TCTAGTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (16 bp):
AAATGTATCGATACAA
Found at i:3806872 original size:13 final size:13
Alignment explanation
Indices: 3806854--3806879 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3806844 TACAGCAAGT
3806854 ATGTATCGATACA
1 ATGTATCGATACA
3806867 ATGTATCGATACA
1 ATGTATCGATACA
3806880 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3809131 original size:21 final size:21
Alignment explanation
Indices: 3809098--3809142 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3809088 TTGCAAGTTG
*
3809098 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
3809120 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
3809140 AAA
1 AAA
3809143 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:3810966 original size:15 final size:15
Alignment explanation
Indices: 3810946--3810976 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3810936 TAAAAATGTC
*
3810946 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
3810961 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3810976 C
1 C
3810977 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:3813056 original size:20 final size:20
Alignment explanation
Indices: 3813033--3813105 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3813023 ACAACTCAAA
3813033 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
3813053 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
3813074 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
3813094 GTATCGATACAT
1 GTATCGATACAT
3813106 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:3813084 original size:41 final size:42
Alignment explanation
Indices: 3813033--3813127 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
3813023 ACAACTCAAA
*
3813033 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
3813074 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
3813116 GTATCGATACAT
1 GTATCGATACAT
3813128 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:3813184 original size:13 final size:13
Alignment explanation
Indices: 3813166--3813191 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3813156 TACAGCAAGT
3813166 ATGTATCGATACA
1 ATGTATCGATACA
3813179 ATGTATCGATACA
1 ATGTATCGATACA
3813192 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3817275 original size:15 final size:15
Alignment explanation
Indices: 3817255--3817293 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
3817245 TAAAAATGTC
*
3817255 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
3817270 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
3817285 CCAAATGAA
1 CAAAATGAA
3817294 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:3819377 original size:20 final size:21
Alignment explanation
Indices: 3819299--3819376 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
3819289 ATGTCCAAAA
*
3819299 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
3819319 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
3819343 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
3819364 TGTATCGATACAT
1 TGTATCGATACAT
3819377 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:3819381 original size:13 final size:13
Alignment explanation
Indices: 3819363--3819401 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3819353 ACATTTTTTG
3819363 TTGTATCGATACA
1 TTGTATCGATACA
3819376 TTGTATCGATACA
1 TTGTATCGATACA
*
3819389 CTGTATCGATACA
1 TTGTATCGATACA
3819402 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3821249 original size:18 final size:16
Alignment explanation
Indices: 3821208--3821253 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
3821198 AATTACTTGA
3821208 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
3821224 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
3821240 TTAAACGGGGGAGA
1 TT-AA-GGGGGAGA
3821254 CAAAGGAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 18 0.64
17 2 0.07
18 8 0.29
ACGTcount: A:0.28, C:0.02, G:0.39, T:0.30
Consensus pattern (16 bp):
TTAAGGGGGAGATTTT
Found at i:3821883 original size:20 final size:20
Alignment explanation
Indices: 3821860--3821932 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3821850 ACAACTCAAA
3821860 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
3821880 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
3821901 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
3821921 GTATCGATACAT
1 GTATCGATACAT
3821933 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:3821911 original size:41 final size:42
Alignment explanation
Indices: 3821860--3821954 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
3821850 ACAACTCAAA
*
3821860 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
3821901 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
3821943 GTATCGATACAT
1 GTATCGATACAT
3821955 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:3822011 original size:13 final size:13
Alignment explanation
Indices: 3821993--3822018 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3821983 TACAGCAAGT
3821993 ATGTATCGATACA
1 ATGTATCGATACA
3822006 ATGTATCGATACA
1 ATGTATCGATACA
3822019 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3823256 original size:20 final size:20
Alignment explanation
Indices: 3823213--3823258 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
3823203 AAATCTTTTG
3823213 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
3823234 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
3823254 CAAAA
1 CAAAA
3823259 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:3825655 original size:13 final size:13
Alignment explanation
Indices: 3825637--3825662 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3825627 TACAGCAAGT
3825637 ATGTATCGATACA
1 ATGTATCGATACA
3825650 ATGTATCGATACA
1 ATGTATCGATACA
3825663 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3833201 original size:175 final size:173
Alignment explanation
Indices: 3832943--3833268 Score: 376
Period size: 175 Copynumber: 1.9 Consensus size: 173
3832933 ACATCCTGAC
* * * *
3832943 TATTCTGAAGGGATACTTCAATCCCGTTCTAACAAAAATTCAAATTTACTTCGTGGAATTTTACC
1 TATTCCGAAGGGATACTTCAATACCGCTCTAACAAAAATTCAAATTTACTTCGTAGAATTTTACC
* *
3833008 TTTAGGGAAACTCCATCCCCACTC-CTCTGAGGGAACATTCCAACC-CTAC-TTTAACAAAAACT
66 TTTAGGGAAACACCATCCCCACTCTCTC-GAGAGAACATTCCAACCAC-ACTTTTAA-AAAAACT
*
3833070 CAAATTTTCCTTGGTGGAATTTTATCTTAAGAGAAACTCTATCCCCAT
128 CAAATATTCCTT--TGGAATTTTATCTTAAGAGAAACTCTATCCCCAT
* * * * *
3833118 TATTCCGAGGGGATAC-TCTAATACCGCTCTAATAAAAATTTAAATTTTCCTTCGTATAATTTTA
1 TATTCCGAAGGGATACTTC-AATACCGCTCTAACAAAAATTCAAA-TTTACTTCGTAGAATTTTA
* * * * *
3833182 TCC-TTGGGGAAA-ACCATCCCTACTCTTTCGAGAGAATATTCCAACCACGCTTTTAAAAAAACT
64 -CCTTTAGGGAAACACCATCCCCACTCTCTCGAGAGAACATTCCAACCACACTTTTAAAAAAACT
*
3833245 CAAATATTCCTTTGTAATTTTATC
128 CAAATATTCCTTTGGAATTTTATC
3833269 CTCGGGGAAA
Statistics
Matches: 127, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
173 11 0.09
174 2 0.02
175 80 0.63
176 32 0.25
177 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (173 bp):
TATTCCGAAGGGATACTTCAATACCGCTCTAACAAAAATTCAAATTTACTTCGTAGAATTTTACC
TTTAGGGAAACACCATCCCCACTCTCTCGAGAGAACATTCCAACCACACTTTTAAAAAAACTCAA
ATATTCCTTTGGAATTTTATCTTAAGAGAAACTCTATCCCCAT
Found at i:3836001 original size:69 final size:71
Alignment explanation
Indices: 3835920--3836092 Score: 201
Period size: 70 Copynumber: 2.5 Consensus size: 71
3835910 GATTAACAAA
* * * * *
3835920 CTTACTTTAAAGGTCTTTTAGACTTAATCTTGACTC-TGCTTTAA-GGTTATTTGAGACTTAATC
1 CTTACTTCAAAGGTCTTTAAAACTTAATCTTGAATCTTACTTTAAGGGTT-TTTGAGACTTAATC
*
3835983 TTG-GAT
65 TTGAAAT
* *
3835989 CTTACTTCAAAGGTCTTTAAAACTTGATCTTGAATCTTACTTTAAGGGTTTTTGAGACTTGATCT
1 CTTACTTCAAAGGTCTTTAAAACTTAATCTTGAATCTTACTTTAAGGGTTTTTGAGACTTAATCT
3836054 TGAAAT
66 TGAAAT
* * * *
3836060 CTTGCTTCAAGGGTC-TTCAAATTTAATCTTGAA
1 CTTACTTCAAAGGTCTTTAAAACTTAATCTTGAA
3836093 AAATAGGGTA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
69 31 0.35
70 38 0.43
71 19 0.22
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.43
Consensus pattern (71 bp):
CTTACTTCAAAGGTCTTTAAAACTTAATCTTGAATCTTACTTTAAGGGTTTTTGAGACTTAATCT
TGAAAT
Found at i:3836019 original size:35 final size:35
Alignment explanation
Indices: 3835975--3836076 Score: 123
Period size: 35 Copynumber: 2.9 Consensus size: 35
3835965 GTTATTTGAG
* * *
3835975 ACTTAATCTTGGATCTTACTTCAAAGGTCTTTAAA
1 ACTTGATCTTGAATCTTACTTCAAGGGTCTTTAAA
* * * *
3836010 ACTTGATCTTGAATCTTACTTTAAGGGTTTTTGAG
1 ACTTGATCTTGAATCTTACTTCAAGGGTCTTTAAA
*
3836045 ACTTGATCTTGAAATCTTGCTTCAAGGGTCTT
1 ACTTGATCTTG-AATCTTACTTCAAGGGTCTT
3836077 CAAATTTAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
35 39 0.70
36 17 0.30
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (35 bp):
ACTTGATCTTGAATCTTACTTCAAGGGTCTTTAAA
Found at i:3836589 original size:66 final size:66
Alignment explanation
Indices: 3836402--3836632 Score: 304
Period size: 66 Copynumber: 3.5 Consensus size: 66
3836392 TCACTACTTT
* * * * * * *
3836402 GCAAAACCAATGGCGAA-AAGAGTAGCTCAGCATAATCCTAAAGTTGTTGCACCATTACTCTATA
1 GCAAAACCAATGG-GAATGAGAGTAGCTGAGCATAGTCCTGAAGTTGCTGCACCACTACTCTACA
3836466 TG
65 TG
* * *
3836468 GCAAAACCAATGGGAATGAGAG-AGTTGAGCATAGTCCTGAAGTTGCTACACCACTACTTTACAT
1 GCAAAACCAATGGGAATGAGAGTAGCTGAGCATAGTCCTGAAGTTGCTGCACCACTACTCTACAT
3836532 G
66 G
* * *
3836533 ACAAAACCAATGGGAATGAGAGTAGCTGAGCACAGTCCTGAAGTTGCTGCATCACTACTCTACAT
1 GCAAAACCAATGGGAATGAGAGTAGCTGAGCATAGTCCTGAAGTTGCTGCACCACTACTCTACAT
3836598 G
66 G
* *
3836599 GCAAAACCAATGGGAATGAAAGTAGCTAAGCATA
1 GCAAAACCAATGGGAATGAGAGTAGCTGAGCATA
3836633 ATACCTAGAG
Statistics
Matches: 143, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
65 58 0.41
66 85 0.59
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (66 bp):
GCAAAACCAATGGGAATGAGAGTAGCTGAGCATAGTCCTGAAGTTGCTGCACCACTACTCTACAT
G
Found at i:3836657 original size:131 final size:131
Alignment explanation
Indices: 3836403--3836662 Score: 296
Period size: 131 Copynumber: 2.0 Consensus size: 131
3836393 CACTACTTTG
* * * *
3836403 CAAAACCAATGGCGAAAAGAGTAGCTCAGCATAATCCTAAAGTTGTTGCACCATTACTCTATATG
1 CAAAACCAATGGCGAAAAGAGTAGCTCAGCACAATCCTAAAGTTGCTGCACCACTACTCTACATG
* * * * * * *
3836468 GCAAAACCAATGGGAATGAGAGAGTTGAGCATAGTCCTGAAGTTGCTACACCACTACTTTACATG
66 GCAAAACCAATGGGAATGAAAGAGCTAAGCATAATCCTGAAGTTGATACACCAATACTTGACATG
3836533 A
131 A
* * * * *
3836534 CAAAACCAATGG-GAATGAGAGTAGCTGAGCACAGTCCTGAAGTTGCTGCATCACTACTCTACAT
1 CAAAACCAATGGCGAA-AAGAGTAGCTCAGCACAATCCTAAAGTTGCTGCACCACTACTCTACAT
3836598 GGCAAAACCAATGGGAATGAAAGTAGCTAAGCATAATACCT-AGAGTT-AT-C-CCTAATACTTG
65 GGCAAAACCAATGGGAATGAAAG-AGCTAAGCATAAT-CCTGA-AGTTGATACACC-AATACTTG
3836659 ACAT
126 ACAT
3836663 TGGCTAAACA
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
130 5 0.05
131 84 0.78
132 12 0.11
133 7 0.06
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (131 bp):
CAAAACCAATGGCGAAAAGAGTAGCTCAGCACAATCCTAAAGTTGCTGCACCACTACTCTACATG
GCAAAACCAATGGGAATGAAAGAGCTAAGCATAATCCTGAAGTTGATACACCAATACTTGACATG
A
Found at i:3839195 original size:81 final size:81
Alignment explanation
Indices: 3839054--3839492 Score: 393
Period size: 81 Copynumber: 5.4 Consensus size: 81
3839044 TCTCTCCAAG
* * ** * *
3839054 GGGATACTCTAACCTTGCTTTTCTTACATAAAAATCTTAAATTTACATTTTCAAGGATACTCCAA
1 GGGATACTCCAACCCTATTTTTCTTACA-AAAAATCTTGAATTTACATTTTCGAGGATACTCCAA
3839119 CCCCATCTCTCTAAAAA
65 CCCCATCTCTCTAAAAA
* * ** * *
3839136 GGGATACTCCAACCCCATTTTTCTTATAAAAAATCTTGAATTTACATTTTTTAGAATACTTCAAC
1 GGGATACTCCAACCCTATTTTTCTTACAAAAAATCTTGAATTTACATTTTCGAGGATACTCCAAC
* ** *
3839201 CCCATCTATC-CGAGA
66 CCCATCTCTCTAAAAA
* * *
3839216 -GGATACTCCAACCCTACTTTT-TTACAAAAAAATCTTAAATTTACATTCTCGAGGATACTCCAA
1 GGGATACTCCAACCCTATTTTTCTTAC-AAAAAATCTTGAATTTACATTTTCGAGGATACTCCAA
* *
3839279 CCCCATTTGTCTAAAAA
65 CCCCATCTCTCTAAAAA
* * * **
3839296 AGGATACTCCAACCTTGTTTTTCTTACAAAAAATCTTGAATTTATGTTTTCGAGGATACTCC-AC
1 GGGATACTCCAACCCTATTTTTCTTACAAAAAATCTTGAATTTACATTTTCGAGGATACTCCAAC
* *
3839360 CCTCATCTCTCCAACAA
66 CC-CATCTCTCTAAAAA
** * * * * *
3839377 GAGGATACTTTAACCTTATTTTGCTTATGAAAAAAATCTTGAATTTACATTTTTG-GGCATACTT
1 G-GGATACTCCAACCCTATTTTTCTTA--CAAAAAATCTTGAATTTACATTTTCGAGG-ATACTC
* *
3839441 CAACCCTATTTCTCTAAAAA
62 CAACCCCATCTCTCTAAAAA
* ** * * *
3839461 GGAATGTTCTAACCCCATTTTTCATACAAAAA
1 GGGATACTCCAACCCTATTTTTCTTACAAAAA
3839493 TACTTTAATT
Statistics
Matches: 284, Mismatches: 63, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
78 3 0.01
79 59 0.21
80 8 0.03
81 105 0.37
82 47 0.17
83 19 0.07
84 39 0.14
85 4 0.01
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (81 bp):
GGGATACTCCAACCCTATTTTTCTTACAAAAAATCTTGAATTTACATTTTCGAGGATACTCCAAC
CCCATCTCTCTAAAAA
Found at i:3839273 original size:160 final size:157
Alignment explanation
Indices: 3838897--3839339 Score: 482
Period size: 160 Copynumber: 2.8 Consensus size: 157
3838887 CTCTTTGAAG
* * * * * *
3838897 GGATACTCCAAACCTTTTTTCTTACAAAAAAATCTTTAATTTATATTCTCG-GAAATACTCTAAC
1 GGATACTCCAACCCTCTTTTCTTACAAAAAAATCTTAAATTTACATTCTCGAG-GATACTCCAAC
* * ** * * *
3838961 CCCATCTTTCCAAAAAAAAGGATACTTTATCGCCGTTTTTCTTAT-AAAAATCTTGAATTTTCAT
65 CCCATCTCT-C-TAAAAAAGGATACTCCAACCCCGTTTTTCTTATAAAAAATCTTGAATTTACAT
* *
3839025 CCTTGAGAAGTATTCTAACTCTCTCCAAGG
128 CCTTGAGAAGTATTCTAACTCTATCCAAGA
* * * * *
3839055 GGATACTCTAACCTTGCTTTTCTTACATAAAAATCTTAAATTTACATTTTCAAGGATACTCCAAC
1 GGATACTCCAACCCT-CTTTTCTTACAAAAAAATCTTAAATTTACATTCTCGAGGATACTCCAAC
* * **
3839120 CCCATCTCTCTAAAAAGGGATACTCCAACCCCATTTTTCTTATAAAAAATCTTGAATTTACATTT
65 CCCATCTCTCTAAAAAAGGATACTCCAACCCCGTTTTTCTTATAAAAAATCTTGAATTTACATCC
* *
3839185 TTTAGAA-TACTTC-AACCCCATCTATCCGAGA
130 TTGAGAAGTA-TTCTAA---C-TCTATCCAAGA
3839216 GGATACTCCAACCCTACTTTT-TTACAAAAAAATCTTAAATTTACATTCTCGAGGATACTCCAAC
1 GGATACTCCAACCCT-CTTTTCTTACAAAAAAATCTTAAATTTACATTCTCGAGGATACTCCAAC
* * ** *
3839280 CCCATTTGTCTAAAAAAGGATACTCCAACCTTGTTTTTCTTACAAAAAATCTTGAATTTA
65 CCCATCTCTCTAAAAAAGGATACTCCAACCCCGTTTTTCTTATAAAAAATCTTGAATTTA
3839340 TGTTTTCGAG
Statistics
Matches: 238, Mismatches: 39, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
157 30 0.13
158 40 0.17
159 47 0.20
160 95 0.40
161 26 0.11
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (157 bp):
GGATACTCCAACCCTCTTTTCTTACAAAAAAATCTTAAATTTACATTCTCGAGGATACTCCAACC
CCATCTCTCTAAAAAAGGATACTCCAACCCCGTTTTTCTTATAAAAAATCTTGAATTTACATCCT
TGAGAAGTATTCTAACTCTATCCAAGA
Found at i:3843949 original size:34 final size:35
Alignment explanation
Indices: 3843906--3843984 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
3843896 AAGGGTCTTC
3843906 AAGACTTGATCATGAATC-CGCTTAAAAGGTCATT
1 AAGACTTGATCATGAATCTCGCTTAAAAGGTCATT
* * * *
3843940 AAGACTTGATCTTGAATCTTGCTTCAAAGGTCTTT
1 AAGACTTGATCATGAATCTCGCTTAAAAGGTCATT
*
3843975 GAGACTTGAT
1 AAGACTTGAT
3843985 ATTGAAATCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 17 0.44
35 22 0.56
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (35 bp):
AAGACTTGATCATGAATCTCGCTTAAAAGGTCATT
Found at i:3843980 original size:35 final size:35
Alignment explanation
Indices: 3843892--3843995 Score: 120
Period size: 34 Copynumber: 3.0 Consensus size: 35
3843882 CTTCAATTTA
* * * *
3843892 CTTCAAGGGTCTTCAAGACTTGATCATGAATC-CG
1 CTTCAAAGGTCTTTAAGACTTGATCTTGAATCTTG
* *
3843926 CTTAAAAGGTCATTAAGACTTGATCTTGAATCTTG
1 CTTCAAAGGTCTTTAAGACTTGATCTTGAATCTTG
* *
3843961 CTTCAAAGGTCTTTGAGACTTGATATTGAAATCTT
1 CTTCAAAGGTCTTTAAGACTTGATCTTG-AATCTT
3843996 ACTTTAAGGT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 27 0.47
35 25 0.43
36 6 0.10
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (35 bp):
CTTCAAAGGTCTTTAAGACTTGATCTTGAATCTTG
Found at i:3844005 original size:35 final size:35
Alignment explanation
Indices: 3843889--3843999 Score: 102
Period size: 35 Copynumber: 3.2 Consensus size: 35
3843879 GGTCTTCAAT
*
3843889 TTACTTCAAGGGTC-TTCAAGACTTGATCA-TGAATC
1 TTACTTCAAAGGTCATT-AAGACTTGAT-ATTGAATC
** * *
3843924 -CGCTTAAAAGGTCATTAAGACTTGATCTTGAATC
1 TTACTTCAAAGGTCATTAAGACTTGATATTGAATC
* * *
3843958 TTGCTTCAAAGGTCTTTGAGACTTGATATTGAAATC
1 TTACTTCAAAGGTCATTAAGACTTGATATTG-AATC
3843994 TTACTT
1 TTACTT
3844000 TAAGGTATTC
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
34 25 0.41
35 27 0.44
36 9 0.15
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (35 bp):
TTACTTCAAAGGTCATTAAGACTTGATATTGAATC
Found at i:3850434 original size:2 final size:2
Alignment explanation
Indices: 3850429--3850455 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3850419 TATATGTGTG
3850429 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3850456 TTTGAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3857925 original size:55 final size:54
Alignment explanation
Indices: 3857865--3859122 Score: 1297
Period size: 55 Copynumber: 23.0 Consensus size: 54
3857855 CAGTGGCATT
* * * * *
3857865 CCTTTTTAAGTCCACAACTTCGTGGCAACCTTTTAAGTCCATAACTTCGTGGTA
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
* * * *
3857919 TCC-TTTTAAGTCCATAAATCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCA
1 -CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
* **
3857973 TCCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCTATGGCA
1 -CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCA
* * * *
3858028 CCCTTTTAAAGTCCACAACTCCATGGCATCCTTTTAAGTCCACAACTCCGTGACA
1 -CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
* * * * * *
3858083 CCCTTTTAAGTTCACAACTCCGTAGCATCCTATTAAAGTCCACAACTTCGTGGCA
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCT-TTTAAGTCCACAACTCCGTGGCA
* * *
3858138 CCCTTTTAAGTCCACAA-TCCCATGGCACCCTTTTAAAGTCCACAACTCCATGGCA
1 CCTTTTTAAGTCCACAACT-CCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCA
** * * * *
3858193 CCCTTTCAAAGTCCACAACCCCGTGGCATCCTTTTAAGTCCGCAACTCCATGGCA
1 -CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
* *
3858248 CCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGACA
1 -CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCA
* * *
3858304 CCCTTTTAAGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCTGTGGCA
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
* * * * * *
3858358 TCTCTTTAAGTCCACATCTCTGTGGCACCCTTTCAAGTTCACAACTCCGTGGCA
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
* * * * * *
3858412 CCTTTTAAAGTCTACAACTTCGTGGCATCCTTTTAAGTCCATAACTCTGTGGCA
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
* * * * *
3858466 TCCTTTTAAAGTCCATAACTCCGTGGCACCCTTTTAAGTTCATAACTCTGTGGCA
1 -CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
* *
3858521 CCCTTTTAAAGTCCACAAATCCGTGGCACCCCTTTTAAGTCCACAACTCCGTGGCA
1 -CCTTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA
* * * * *
3858577 TCC-TTTTAAGTCCACAACTCTGTGGCACCCTTTAAAGTTCACAACTCTGTGGTA
1 -CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
* * * * * *
3858631 TCC-TTTAAAGTCCATAACTCTGTGGCACCCTTTTAAAGTCGACATCTCCATGGCA
1 -CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCA
* * * *
3858686 CCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCCGTAGCA
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
* * * * *
3858740 CCCTTTAAAGTCCACAACTCAGTGCCACCCTTTTAAGTCCACAACTCTGTGGCA
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
* * * **
3858794 CCTTTTTAGGTCCACAACTCCGTGGTACCCTTTTAAAGTCTACAACTCTATGGCA
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCA
* * ** * *
3858849 CCCTTTTAAGTCCACAACTCCATGGCACTTTTTTAAAGTCCACCACTCTGTGGCA
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCA
* * * * * *
3858904 CCCTTTTAGGTCCATAACTCCGCGGCA-CCTATTTAAGTCCATAACTCCGTGGTA
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCT-TTTAAGTCCACAACTCCGTGGCA
* * ** * * *
3858958 TCCTTTTAAAGTCTACAACTTTGTGGCATCCTTTTAAATCCACATCTCCGTGGCA
1 -CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
* * * *
3859013 CCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAGCCCACAACTCCGTGGCA
1 CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
* * * * **
3859067 -CTCTATAAAGTCCATAACTCCGTGGCACCCTTATAAGTCCACAACTCTATGGCA
1 CCT-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
3859121 CC
1 CC
3859123 CTTACAAGTC
Statistics
Matches: 1013, Mismatches: 171, Indels: 38
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.00
54 439 0.43
55 494 0.49
56 79 0.08
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.30
Consensus pattern (54 bp):
CCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:3857993 original size:28 final size:28
Alignment explanation
Indices: 3857842--3859728 Score: 1362
Period size: 28 Copynumber: 68.4 Consensus size: 28
3857832 TAACCTCTTC
* * *
3857842 AAAGTCCACGATTCAGTGGCATTCCTTTT
1 AAAGTCCACAACTCCGTGGCA-TCCTTTT
* * *
3857871 TAAGTCCACAACTTCGTGGCAACCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * *
3857899 -AAGTCCATAACTTCGTGGTATCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * *
3857926 -AAGTCCATAAATCCGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3857953 -AAGTCCATAACTCTGTGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
3857980 AAAGTCCACAACTCCGTGGCA-CCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
** *
3858007 AAAGTCCACAACTCTATGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
*
3858035 AAAGTCCACAACTCCATGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3858063 -AAGTCCACAACTCCGTGACACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * *
3858090 -AAGTTCACAACTCCGTAGCATCCTATT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3858117 AAAGTCCACAACTTCGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3858145 -AAGTCCACAA-TCCCATGGCACCCTTTT
1 AAAGTCCACAACT-CCGTGGCATCCTTTT
* * *
3858172 AAAGTCCACAACTCCATGGCACCCTTTC
1 AAAGTCCACAACTCCGTGGCATCCTTTT
*
3858200 AAAGTCCACAACCCCGTGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * *
3858228 -AAGTCCGCAACTCCATGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
*
3858255 AAAGTCCACAACTCCGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3858283 AAAGTCCACAACTCCGTGACACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3858311 -AAGTCCACAACTCCGTGGTACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
*
3858338 -AAGTCCACAACTCTGTGGCAT-CTCTTT
1 AAAGTCCACAACTCCGTGGCATCCT-TTT
* * *
3858365 -AAGTCCACATCTCTGTGGCA-CCCTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3858391 CAAGTTCACAACTCCGTGGCA-CCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3858418 AAAGTCTACAACTTCGTGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3858446 -AAGTCCATAACTCTGTGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3858473 AAAGTCCATAACTCCGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * * *
3858501 -AAGTTCATAACTCTGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3858528 AAAGTCCACAAATCCGTGGCACCCCTTTT
1 AAAGTCCACAACTCCGTGGCA-TCCTTTT
3858557 -AAGTCCACAACTCCGTGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3858584 -AAGTCCACAACTCTGTGGCA-CCCTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * *
3858610 AAAGTTCACAACTCTGTGGTATCC-TTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * *
3858637 AAAGTCCATAACTCTGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * * *
3858665 AAAGTCGACATCTCCATGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
3858693 -AAGTCCACAACTCCGTGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * *
3858720 -AAGCCCACAACTCCGTAGCA-CCCTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * *
3858746 AAAGTCCACAACTCAGTGCCACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
*
3858774 -AAGTCCACAACTCTGTGGCA-CCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * * *
3858800 TAGGTCCACAACTCCGTGGTACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* ** *
3858828 AAAGTCTACAACTCTATGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3858856 -AAGTCCACAACTCCATGGCA-CTTTTTT
1 AAAGTCCACAACTCCGTGGCATC-CTTTT
* * *
3858883 AAAGTCCACCACTCTGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * *
3858911 -AGGTCCATAACTCCGCGGCA-CCTATTT
1 AAAGTCCACAACTCCGTGGCATCCT-TTT
* *
3858938 -AAGTCCATAACTCCGTGGTATCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* **
3858965 AAAGTCTACAACTTTGTGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3858993 AAA-TCCACATCTCCGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
*
3859020 -AAGTCCACAACTTCGTGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* *
3859047 -AAGCCCACAACTCCGTGGCA--CTCTAT
1 AAAGTCCACAACTCCGTGGCATCCT-TTT
* * *
3859073 AAAGTCCATAACTCCGTGGCACCCTTAT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
** *
3859101 -AAGTCCACAACTCTATGGCA-CC-CTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
*
3859126 ACAAGT------CT--GTGGCATCATTTT
1 A-AAGTCCACAACTCCGTGGCATCCTTTT
* * * *
3859147 CAAAGCCCACAAGTCGGTGGTATCTCATTTT
1 -AAAGTCCACAACTCCGTGGCATC-C-TTTT
* * * * *
3859178 AAAGCCCACACAAGTCGGTGGCAACTCATTTG
1 AAAG-TC-CACAACTCCGTGGC-A-TCCTTTT
* * * * *
3859210 AAAGCCCACACAAGTCAGTGGCAACCCATTTC
1 AAAG-TC-CACAACTCCGTGGC-ATCC-TTTT
*
3859242 AAAGCCCACAACTCCGTGGCAT-CTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * * * *
3859269 TAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * * *
3859297 AAAGCCCACAAGTCAGTGGCA-CCATTTC
1 AAAGTCCACAACTCCGTGGCATCC-TTTT
* * *
3859325 AAAGCCCACAAGTCAGTGGCAT-CTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * * * *
3859352 CAAAGCCCACAAGTCAGTGGCACCCTTTC
1 -AAAGTCCACAACTCCGTGGCATCCTTTT
* * * * *
3859381 AAAGCCCACAAGTCAGTGGCATCATTTC
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * * * *
3859409 AAAGCCCATAAGTCAGTGGCAT-ATTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * * *
3859436 CCAAGCCCACAAGTCAGTGGCA-CCTTTTT
1 -AAAGTCCACAACTCCGTGGCATCC-TTTT
* * * *
3859465 CCAAGCCCACAAGTCAGTGGCA-CCTTTT
1 -AAAGTCCACAACTCCGTGGCATCCTTTT
* * * * * * *
3859493 CCAAGCCCACAAGTCAGTGACACCCTTTC
1 -AAAGTCCACAACTCCGTGGCATCCTTTT
* * * * *
3859522 AAAGCCCATAAGTCAGTGGCATCATTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * *
3859550 AAAGCCCACAAGTCAGTGGCAT-CTTTT
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * * ** *
3859577 CCAAGCCCACAAGTTAGTGGCATCCTTTC
1 -AAAGTCCACAACTCCGTGGCATCCTTTT
* * * * *
3859606 AAATTCCACAAGTCAGTGGCATCATTTC
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * * * *
3859634 AAAGCCCACAAGTCAGTGGCATCATTTC
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * * *
3859662 AAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGTCCACAACTCCGTGGCATCCTTTT
* * ** *
3859690 AAAGCCCACAATTTAGTGGCATCCTTTC
1 AAAGTCCACAACTCCGTGGCATCCTTTT
*
3859718 AAAGCCCACAA
1 AAAGTCCACAA
3859729 GTTAGTGGCA
Statistics
Matches: 1587, Mismatches: 208, Indels: 127
0.83 0.11 0.07
Matches are distributed among these distances:
19 5 0.00
20 1 0.00
21 7 0.00
22 1 0.00
25 3 0.00
26 32 0.02
27 692 0.44
28 696 0.44
29 76 0.05
30 16 0.01
31 9 0.01
32 46 0.03
33 1 0.00
34 2 0.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (28 bp):
AAAGTCCACAACTCCGTGGCATCCTTTT
Found at i:3859132 original size:27 final size:27
Alignment explanation
Indices: 3857868--3859125 Score: 1410
Period size: 27 Copynumber: 46.1 Consensus size: 27
3857858 TGGCATTCCT
* *
3857868 TTTTAAGTCCACAACTTCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * * *
3857895 TTTTAAGTCCATAACTTCGTGGTATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
3857922 TTTTAAGTCCATAAATCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
3857949 TTTTAAGTCCATAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
3857976 TTTTAAAGTCCACAACTCCGTGGCA-CC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
**
3858003 TTTTAAAGTCCACAACTCTATGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
3858031 TTTTAAAGTCCACAACTCCATGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
3858059 TTTTAAGTCCACAACTCCGTGACACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
3858086 TTTTAAGTTCACAACTCCGTAGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
3858113 TATTAAAGTCCACAACTTCGTGGCACCC
1 T-TTTAAGTCCACAACTCCGTGGCACCC
*
3858141 TTTTAAGTCCACAA-TCCCATGGCACCC
1 TTTTAAGTCCACAACT-CCGTGGCACCC
*
3858168 TTTTAAAGTCCACAACTCCATGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* * *
3858196 TTTCAAAGTCCACAACCCCGTGGCATCC
1 TTT-TAAGTCCACAACTCCGTGGCACCC
* *
3858224 TTTTAAGTCCGCAACTCCATGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
3858251 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
3858279 TTTTAAAGTCCACAACTCCGTGACACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
3858307 TTTTAAGTCCACAACTCCGTGGTACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
3858334 TTTTAAGTCCACAACTCTGTGGCA-TC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
3858360 TCTTTAAGTCCACATCTCTGTGGCACCC
1 T-TTTAAGTCCACAACTCCGTGGCACCC
* *
3858388 TTTCAAGTTCACAACTCCGTGGCA-CC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
3858414 TTTTAAAGTCTACAACTTCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* * *
3858442 TTTTAAGTCCATAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
3858469 TTTTAAAGTCCATAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* * *
3858497 TTTTAAGTTCATAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
3858524 TTTTAAAGTCCACAAATCCGTGGCACCCC
1 TTTT-AAGTCCACAACTCCGTGGCA-CCC
*
3858553 TTTTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
3858580 TTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * * * *
3858607 TTTAAAGTTCACAACTCTGTGGTATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
3858634 TTTAAAGTCCATAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
3858661 TTTTAAAGTCGACATCTCCATGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
*
3858689 TTTTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
3858716 TTTTAAGCCCACAACTCCGTAGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
3858743 TTTAAAGTCCACAACTCAGTGCCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
3858770 TTTTAAGTCCACAACTCTGTGGCACCT
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
3858797 TTTTAGGTCCACAACTCCGTGGTACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* **
3858824 TTTTAAAGTCTACAACTCTATGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* **
3858852 TTTTAAGTCCACAACTCCATGGCACTT
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
3858879 TTTTAAAGTCCACCACTCTGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* * *
3858907 TTTTAGGTCCATAACTCCGCGGCA-CC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
3858933 TATTTAAGTCCATAACTCCGTGGTATCC
1 T-TTTAAGTCCACAACTCCGTGGCACCC
* ** *
3858961 TTTTAAAGTCTACAACTTTGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
3858989 TTTTAAATCCACATCTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
3859016 TTTTAAGTCCACAACTTCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
3859043 TTTTAAGCCCACAACTCCGTGGCACTC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
3859070 TATAAAGTCCATAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* **
3859097 TTATAAGTCCACAACTCTATGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
3859124 TT
1 TT
3859126 ACAAGTCTGT
Statistics
Matches: 1050, Mismatches: 160, Indels: 42
0.84 0.13 0.03
Matches are distributed among these distances:
26 11 0.01
27 701 0.67
28 330 0.31
29 8 0.01
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.30
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:3859733 original size:28 final size:28
Alignment explanation
Indices: 3859126--3860013 Score: 973
Period size: 28 Copynumber: 31.1 Consensus size: 28
3859116 TGGCACCCTT
* *
3859126 ACAAGTCTGTGGCATCATTTTCAAAGCCC
1 ACAAGTCAGTGGCATC-CTTTCAAAGCCC
* * *
3859155 ACAAGTCGGTGGTATCTCATTTTAAAGCCCAC
1 ACAAGTCAGTGGCATC-C-TTTCAAAG-CC-C
* * *
3859187 ACAAGTCGGTGGCAACTCATTTGAAAGCCCAC
1 ACAAGTCAGTGGC-A-TCCTTTCAAAG-CC-C
*
3859219 ACAAGTCAGTGGCAACCCATTTCAAAGCCC
1 ACAAGTCAGTGGC-ATCC-TTTCAAAGCCC
* * **
3859249 ACAACTCCGTGGCAT-CTTTTTAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
3859276 ACAAGTCAGTGGCATCCTTTCAAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
3859304 ACAAGTCAGTGGCA-CCATTTCAAAGCCC
1 ACAAGTCAGTGGCATCC-TTTCAAAGCCC
*
3859332 ACAAGTCAGTGGCATCTTTTCAAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
*
3859360 ACAAGTCAGTGGCACCCTTTCAAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
*
3859388 ACAAGTCAGTGGCATCATTTCAAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
* ** *
3859416 ATAAGTCAGTGGCATATTTTCCAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
*
3859444 ACAAGTCAGTGGCA-CCTTTTTCCAAGCCC
1 ACAAGTCAGTGGCATCC--TTTCAAAGCCC
*
3859473 ACAAGTCAGTGGCA-CCTTTTCCAAGCCC
1 ACAAGTCAGTGGCATCC-TTTCAAAGCCC
* *
3859501 ACAAGTCAGTGACACCCTTTCAAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
* * *
3859529 ATAAGTCAGTGGCATCATTTTAAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
* *
3859557 ACAAGTCAGTGGCATCTTTTCCAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
* **
3859585 ACAAGTTAGTGGCATCCTTTCAAATTCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
*
3859613 ACAAGTCAGTGGCATCATTTCAAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
*
3859641 ACAAGTCAGTGGCATCATTTCAAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
3859669 ACAAGTCAGTGGCATCCTTTCAAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
* *
3859697 ACAATTTAGTGGCATCCTTTCAAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
*
3859725 ACAAGTTAGTGGCA--CTAGTTCAAAGCCC
1 ACAAGTCAGTGGCATCCT--TTCAAAGCCC
* *
3859753 ACAAGTCAGTGGCATCATTTCAAAACCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
* *
3859781 ACAAGTCAGTGACATCCTTTCAAAACCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
* *
3859809 ACAAGTTAGTGGCA-CTATTTCAAAGCCC
1 ACAAGTCAGTGGCATC-CTTTCAAAGCCC
* * *
3859837 GCAAGTTAGTGGCATCCTTTTAAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
*
3859865 ACAAGTCAGTGGCGTCCTTTCAAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
* * *
3859893 ACAAGTGAGTGGTATCATTTCAAAGCCC
1 ACAAGTCAGTGGCATCCTTTCAAAGCCC
* * * * *
3859921 ACAAGTTAATAGCA-CCATTTCAAAACTC
1 ACAAGTCAGTGGCATCC-TTTCAAAGCCC
*
3859949 ACAAGTCAATGGCATACCCTTTCAAAGCCC
1 ACAAGTCAGTGGCAT--CCTTTCAAAGCCC
* *
3859979 ACACGAGTCGGTGGCAACTCTTTTCAAAGCCC
1 ACA--AGTCAGTGGC-A-TCCTTTCAAAGCCC
3860011 ACA
1 ACA
3860014 CAAGTTAATG
Statistics
Matches: 742, Mismatches: 91, Indels: 49
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.00
27 26 0.04
28 555 0.75
29 46 0.06
30 32 0.04
31 7 0.01
32 69 0.09
33 2 0.00
34 3 0.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (28 bp):
ACAAGTCAGTGGCATCCTTTCAAAGCCC
Found at i:3861802 original size:2 final size:2
Alignment explanation
Indices: 3861797--3861839 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
3861787 TGTGTGTGTG
3861797 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3861839 T
1 T
3861840 TGAAAATCTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3862491 original size:13 final size:13
Alignment explanation
Indices: 3862473--3862499 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3862463 ACATTATGCT
3862473 TTGTATCGATACA
1 TTGTATCGATACA
3862486 TTGTATCGATACA
1 TTGTATCGATACA
3862499 T
1 T
3862500 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3862496 original size:33 final size:32
Alignment explanation
Indices: 3862454--3862518 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
3862444 CACACCCAGA
* * *
3862454 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGAT-CATTGTATCAATACAT
3862487 TGTATCGATACATGATCATTGTATCAATACAT
1 TGTATCGATACATGATCATTGTATCAATACAT
3862519 GGACAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGATCATTGTATCAATACAT
Found at i:3862508 original size:19 final size:18
Alignment explanation
Indices: 3862483--3862540 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
3862473 TTGTATCGAT
3862483 ACATTGTATCGATACATG
1 ACATTGTATCGATACATG
*
3862501 ATCATTGTATCAATACATGG
1 A-CATTGTATCGATACAT-G
3862521 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
3862540 A
1 A
3862541 AACTAGCAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 18 0.51
20 16 0.46
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:3862529 original size:20 final size:20
Alignment explanation
Indices: 3862484--3862539 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
3862474 TGTATCGATA
3862484 CATTGTATCGATACAT-GAT
1 CATTGTATCGATACATGGAT
*
3862503 CATTGTATCAATACATGGA-
1 CATTGTATCGATACATGGAT
3862522 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
3862540 AAACTAGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGGAT
Found at i:3872140 original size:2 final size:2
Alignment explanation
Indices: 3872135--3872162 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3872125 TTGAGTAATT
3872135 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3872163 AAGATCACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3884897 original size:13 final size:14
Alignment explanation
Indices: 3884874--3884913 Score: 57
Period size: 12 Copynumber: 3.0 Consensus size: 14
3884864 CTTTTATAAT
3884874 TTAATATATTTTTA
1 TTAATATATTTTTA
*
3884888 TTAA-ATA-TTTTG
1 TTAATATATTTTTA
3884900 TTAATATATTTTTA
1 TTAATATATTTTTA
3884914 AAGTATATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 8 0.36
13 6 0.27
14 8 0.36
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
TTAATATATTTTTA
Found at i:3884903 original size:12 final size:13
Alignment explanation
Indices: 3884874--3884911 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
3884864 CTTTTATAAT
3884874 TTAATATATTTTTA
1 TTAATATA-TTTTA
*
3884888 TTAA-ATATTTTG
1 TTAATATATTTTA
3884900 TTAATATATTTT
1 TTAATATATTTT
3884912 TAAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 8 0.36
13 10 0.45
14 4 0.18
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (13 bp):
TTAATATATTTTA
Found at i:3885011 original size:21 final size:22
Alignment explanation
Indices: 3884987--3885041 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
3884977 CTATAACTAT
3884987 TATTATAAAAATATAA-AATTA
1 TATTATAAAAATATAAGAATTA
*
3885008 TATTAT-AAAATATAAGTATTA
1 TATTATAAAAATATAAGAATTA
* *
3885029 TAATAAAAAAATA
1 TATTATAAAAATA
3885042 ATTCAAGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.31
21 14 0.48
22 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
TATTATAAAAATATAAGAATTA
Found at i:3885037 original size:20 final size:19
Alignment explanation
Indices: 3884970--3885043 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
3884960 GAACTAATAA
*
3884970 AATAAAACTATAACTATTAT
1 AATAAAAATATAA-TATTAT
* *
3884990 TATAAAAATATAAAATTAT
1 AATAAAAATATAATATTAT
*
3885009 ATTATAAAATATAAGTATTAT
1 AATA-AAAATATAA-TATTAT
*
3885030 AATAAAAAAATAAT
1 AATAAAAATATAAT
3885044 TCAAGCTAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
19 8 0.18
20 28 0.64
21 8 0.18
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (19 bp):
AATAAAAATATAATATTAT
Found at i:3888306 original size:21 final size:22
Alignment explanation
Indices: 3888282--3888322 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3888272 TTTTATAGAT
*
3888282 AAATATTAT-TTTATAATATTA
1 AAATATTATATTTACAATATTA
3888303 AAATATTATATTTACAATAT
1 AAATATTATATTTACAATAT
3888323 CTTTATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATATTATATTTACAATATTA
Found at i:3888309 original size:18 final size:17
Alignment explanation
Indices: 3888257--3888309 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
3888247 ACTGCTTTTA
3888257 TATAATATATAAATATTT
1 TATAATATA-AAATATTT
*
3888275 TATAGATA-AATATTATTT
1 TATA-ATATAA-AATATTT
3888293 TATAATATTAAAATATT
1 TATAATA-TAAAATATT
3888310 ATATTTACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 4 0.14
18 20 0.69
19 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TATAATATAAAATATTT
Found at i:3895221 original size:16 final size:17
Alignment explanation
Indices: 3895195--3895229 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
3895185 AGTCTTTATC
*
3895195 TTTATTATTTTTATAAA
1 TTTATTATTTTAATAAA
3895212 TTTA-TATTTTAATAAA
1 TTTATTATTTTAATAAA
3895228 TT
1 TT
3895230 CAGTTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTATTATTTTAATAAA
Found at i:3896076 original size:20 final size:19
Alignment explanation
Indices: 3896052--3896126 Score: 71
Period size: 19 Copynumber: 3.8 Consensus size: 19
3896042 ACACACTCAG
*
3896052 ATGTATCGATACATGCTGCC
1 ATGTATCGATACATG-TGCA
* * *
3896072 TTGTATCAATACATGTTCA
1 ATGTATCGATACATGTGCA
3896091 ATGTATCGATACAT-TGACAA
1 ATGTATCGATACATGTG-C-A
3896111 ATTGTATCGATACATG
1 A-TGTATCGATACATG
3896127 AAATTGGTAG
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
18 1 0.02
19 15 0.34
20 15 0.34
21 13 0.30
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGTATCGATACATGTGCA
Found at i:3896132 original size:18 final size:20
Alignment explanation
Indices: 3896092--3896129 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3896082 ACATGTTCAA
3896092 TGTATCGATACATTGACAAAT
1 TGTATCGATACATTGA-AAAT
3896113 TGTATCGATACA-TGAAA
1 TGTATCGATACATTGAAA
3896130 TTGGTAGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 3 0.18
21 12 0.71
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATTGAAAAT
Found at i:3902407 original size:13 final size:13
Alignment explanation
Indices: 3902389--3902427 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3902379 CAGCATTCCC
3902389 TGTATCGATACAT
1 TGTATCGATACAT
*
3902402 TGTATCGATACAC
1 TGTATCGATACAT
3902415 TGTATCGATACAT
1 TGTATCGATACAT
3902428 GGCAATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3904299 original size:22 final size:22
Alignment explanation
Indices: 3904274--3904343 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
3904264 TAAATTTATT
3904274 GAGAAGATAATTGTTTAAGGGG
1 GAGAAGATAATTGTTTAAGGGG
** ** *
3904296 GAG-A-ATTTTTACATAAAGGGG
1 GAGAAGATAATT-GTTTAAGGGG
3904317 GAGAAGATAATTGTTTAAGGGG
1 GAGAAGATAATTGTTTAAGGGG
3904339 GAGAA
1 GAGAA
3904344 TTTTTAAGGG
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
20 4 0.11
21 11 0.31
22 16 0.46
23 4 0.11
ACGTcount: A:0.39, C:0.01, G:0.34, T:0.26
Consensus pattern (22 bp):
GAGAAGATAATTGTTTAAGGGG
Found at i:3904356 original size:15 final size:17
Alignment explanation
Indices: 3904325--3904358 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
3904315 GGGAGAAGAT
3904325 AATTGTTTAAGGGGGAG
1 AATTGTTTAAGGGGGAG
3904342 AATT-TTTAA-GGGGAG
1 AATTGTTTAAGGGGGAG
3904357 AA
1 AA
3904359 AAACGAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 5 0.29
17 4 0.24
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (17 bp):
AATTGTTTAAGGGGGAG
Found at i:3904915 original size:13 final size:13
Alignment explanation
Indices: 3904897--3904923 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3904887 ACATGCTGCC
3904897 TTGTATTGATACA
1 TTGTATTGATACA
3904910 TTGTATTGATACA
1 TTGTATTGATACA
3904923 T
1 T
3904924 GTTCAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:3904998 original size:20 final size:19
Alignment explanation
Indices: 3904973--3905025 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
3904963 TATCACTATT
3904973 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
3904993 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
3905013 TGTATCGATACAT
1 TGTATCGATACAT
3905026 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:3916447 original size:48 final size:48
Alignment explanation
Indices: 3916387--3916478 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
3916377 ATAAGATTGA
* *
3916387 GAATATAACAATAAGATTAAAATTAGTAAAAAAAATATGAATTTGGAT
1 GAATATAACAATAAGATTAAAATCAATAAAAAAAATATGAATTTGGAT
*
3916435 GAATATAGCAATAAGATTAAAATCAATAAAAAAAATATGAATTT
1 GAATATAACAATAAGATTAAAATCAATAAAAAAAATATGAATTT
3916479 AGATAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.28
Consensus pattern (48 bp):
GAATATAACAATAAGATTAAAATCAATAAAAAAAATATGAATTTGGAT
Found at i:3924699 original size:20 final size:19
Alignment explanation
Indices: 3924672--3924783 Score: 98
Period size: 20 Copynumber: 5.6 Consensus size: 19
3924662 GAAAAGACAG
3924672 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* * *
3924691 GAATATATCGAAACATTCATA
1 -AATGTATCGATACATTGA-A
* * *
3924712 CATGCATCAATACATTGAAA
1 AATGTATCGATACATTG-AA
*
3924732 AATGTATCGATACATTCATA
1 AATGTATCGATACATTGA-A
* *
3924752 CATGCATCGATACATTGAAA
1 AATGTATCGATACATTG-AA
3924772 AATGTATCGATA
1 AATGTATCGATA
3924784 TATCTAGGTA
Statistics
Matches: 70, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
19 1 0.01
20 66 0.94
21 3 0.04
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:3924782 original size:40 final size:40
Alignment explanation
Indices: 3924677--3924783 Score: 178
Period size: 40 Copynumber: 2.7 Consensus size: 40
3924667 GACAGAATGT
* * *
3924677 ATCGATACATTGAAGAATATATCGAAACATTCATACATGC
1 ATCGATACATTGAAAAATGTATCGATACATTCATACATGC
*
3924717 ATCAATACATTGAAAAATGTATCGATACATTCATACATGC
1 ATCGATACATTGAAAAATGTATCGATACATTCATACATGC
3924757 ATCGATACATTGAAAAATGTATCGATA
1 ATCGATACATTGAAAAATGTATCGATA
3924784 TATCTAGGTA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (40 bp):
ATCGATACATTGAAAAATGTATCGATACATTCATACATGC
Found at i:3925188 original size:17 final size:17
Alignment explanation
Indices: 3925153--3925190 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
3925143 CCCCTCTTTT
*
3925153 TTAAAAAAAAATTCAAA
1 TTAAAAAAAAACTCAAA
3925170 TTAAAAAAAAAGCTC-AA
1 TTAAAAAAAAA-CTCAAA
3925187 TTAA
1 TTAA
3925191 TCCGGATCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.24
Consensus pattern (17 bp):
TTAAAAAAAAACTCAAA
Found at i:3926004 original size:20 final size:19
Alignment explanation
Indices: 3925975--3926013 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
3925965 TACAATTGTA
3925975 AGCATGTATCGATACATTT
1 AGCATGTATCGATACATTT
3925994 AGCATTGTATCGATACATTT
1 AGCA-TGTATCGATACATTT
3926014 TCTTGGCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (19 bp):
AGCATGTATCGATACATTT
Found at i:3930392 original size:13 final size:13
Alignment explanation
Indices: 3930374--3930401 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3930364 ATACAAAGAT
3930374 CAATGTATCGATA
1 CAATGTATCGATA
3930387 CAATGTATCGATA
1 CAATGTATCGATA
3930400 CA
1 CA
3930402 TTGAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:3930416 original size:33 final size:34
Alignment explanation
Indices: 3930332--3930421 Score: 100
Period size: 33 Copynumber: 2.8 Consensus size: 34
3930322 TGCATATATT
*
3930332 GATACATTGAATAATGTATC---CCAGATGTATC
1 GATACATTGAATAATGTATCGATACAGATGTATC
**
3930363 GATACAAAG-ATCAATGTATCGATACA-ATGTATC
1 GATACATTGAAT-AATGTATCGATACAGATGTATC
*
3930396 GATACATTGAATAATATATCGATACA
1 GATACATTGAATAATGTATCGATACA
3930422 TTTCCTTAGC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
30 2 0.04
31 15 0.31
33 27 0.56
34 4 0.08
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (34 bp):
GATACATTGAATAATGTATCGATACAGATGTATC
Found at i:3933711 original size:35 final size:33
Alignment explanation
Indices: 3933631--3933695 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
3933621 GATCAAAATT
*
3933631 AACCAAAAGTATATATTATCTACGATTAAAGTG
1 AACCTAAAGTATATATTATCTACGATTAAAGTG
*
3933664 AACCTAAAGTATATATTATCTATGATTAAAGT
1 AACCTAAAGTATATATTATCTACGATTAAAGT
3933696 TAACTACAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (33 bp):
AACCTAAAGTATATATTATCTACGATTAAAGTG
Found at i:3937796 original size:13 final size:13
Alignment explanation
Indices: 3937778--3937802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3937768 ACGAAAATGG
3937778 TGAGAAAGAAATT
1 TGAGAAAGAAATT
3937791 TGAGAAAGAAAT
1 TGAGAAAGAAAT
3937803 GTAAGGCCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.24, T:0.20
Consensus pattern (13 bp):
TGAGAAAGAAATT
Found at i:3943049 original size:20 final size:20
Alignment explanation
Indices: 3943021--3943097 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
3943011 GTCAAAAACC
* *
3943021 AAATATATCGATACAATAAG
1 AAATGTATCGATACAATTAG
* *
3943041 AAATGTATCGATATAATTTG
1 AAATGTATCGATACAATTAG
* *
3943061 AAGCATGTATCGATACATTTAT
1 AA--ATGTATCGATACAATTAG
*
3943083 TAATGTATCGATACA
1 AAATGTATCGATACA
3943098 TTTCCTTGAC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 31 0.67
22 15 0.33
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (20 bp):
AAATGTATCGATACAATTAG
Found at i:3943987 original size:22 final size:22
Alignment explanation
Indices: 3943962--3944004 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3943952 ATTATCAGTC
3943962 TATTCTATTCTTATCAAATAAT
1 TATTCTATTCTTATCAAATAAT
* *
3943984 TATTTTATTCTTATTAAATAA
1 TATTCTATTCTTATCAAATAA
3944005 CTGTTTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTCTATTCTTATCAAATAAT
Found at i:3944015 original size:22 final size:22
Alignment explanation
Indices: 3943968--3944015 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
3943958 AGTCTATTCT
* *
3943968 ATTCTTATCAAATAATTATTTT
1 ATTCTTATCAAATAACTATTTC
* *
3943990 ATTCTTATTAAATAACTGTTTC
1 ATTCTTATCAAATAACTATTTC
3944012 ATTC
1 ATTC
3944016 CCTCTCTACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTCTTATCAAATAACTATTTC
Found at i:3953414 original size:2 final size:2
Alignment explanation
Indices: 3953407--3953437 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3953397 ATGAAAAATG
3953407 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
3953438 GGTTCTACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3955945 original size:2 final size:2
Alignment explanation
Indices: 3955938--3955964 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3955928 AACCTTAATA
3955938 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3955965 AAAGACTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3957892 original size:15 final size:14
Alignment explanation
Indices: 3957874--3957943 Score: 58
Period size: 14 Copynumber: 5.0 Consensus size: 14
3957864 TATATGTTAA
3957874 AATACATTTTAGAAT
1 AATACATTTTA-AAT
3957889 AATAC-TTTTAAAT
1 AATACATTTTAAAT
* *
3957902 ATATTATATGTT-AA-
1 A-A-TACATTTTAAAT
3957916 AATACATTTTAGAAT
1 AATACATTTTA-AAT
3957931 AATAC-TTTTAAAT
1 AATACATTTTAAAT
3957944 TTTATATTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
12 6 0.13
13 8 0.18
14 14 0.31
15 14 0.31
16 3 0.07
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (14 bp):
AATACATTTTAAAT
Found at i:3957906 original size:42 final size:42
Alignment explanation
Indices: 3957860--3957950 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 42
3957850 TAAACTATTA
3957860 ATATTATATGTTAAAATACATTTTAGAATAATACTTTTAAAT
1 ATATTATATGTTAAAATACATTTTAGAATAATACTTTTAAAT
3957902 ATATTATATGTTAAAATACATTTTAGAATAATACTTTTAAAT
1 ATATTATATGTTAAAATACATTTTAGAATAATACTTTTAAAT
3957944 -T-TTATAT
1 ATATTATAT
3957951 TACAAATAAC
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 6 0.12
41 1 0.02
42 42 0.86
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (42 bp):
ATATTATATGTTAAAATACATTTTAGAATAATACTTTTAAAT
Found at i:3960357 original size:13 final size:13
Alignment explanation
Indices: 3960298--3960363 Score: 51
Period size: 13 Copynumber: 4.6 Consensus size: 13
3960288 TATCAAAATT
3960298 TATAAAAATATAA
1 TATAAAAATATAA
* *
3960311 TATAATTTATATACAA
1 TATAA---AAATATAA
*
3960327 TTATGAAATAATAAAA
1 -TAT-AAA-AATATAA
3960343 TATAAAAATATAA
1 TATAAAAATATAA
3960356 TATAAAAA
1 TATAAAAA
3960364 CTTAAATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
13 19 0.45
14 3 0.07
15 4 0.10
16 11 0.26
17 3 0.07
18 2 0.05
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (13 bp):
TATAAAAATATAA
Found at i:3961763 original size:2 final size:2
Alignment explanation
Indices: 3961756--3961785 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3961746 ATTGGCTGAA
3961756 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3961786 TTGAGCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3965966 original size:9 final size:10
Alignment explanation
Indices: 3965950--3966029 Score: 63
Period size: 10 Copynumber: 7.7 Consensus size: 10
3965940 GTTCTCAATT
3965950 ATTTTTTTTC
1 ATTTTTTTTC
3965960 ATTTTTTTTC
1 ATTTTTTTTC
3965970 ATTTTTTTTTTC
1 A--TTTTTTTTC
* *
3965982 AATTTTTTATG
1 -ATTTTTTTTC
***
3965993 ATTTATTTAAA
1 ATTT-TTTTTC
*
3966004 ACTTTTTTTC
1 ATTTTTTTTC
3966014 A-TTTTTTTC
1 ATTTTTTTTC
3966023 ATTTTTT
1 ATTTTTT
3966030 AAATTTATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
9 9 0.16
10 24 0.42
11 14 0.25
12 9 0.16
13 1 0.02
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.74
Consensus pattern (10 bp):
ATTTTTTTTC
Found at i:3965977 original size:13 final size:13
Alignment explanation
Indices: 3965944--3965989 Score: 55
Period size: 10 Copynumber: 3.8 Consensus size: 13
3965934 AAATTAGTTC
3965944 TCAATTATTTTTTT
1 TCAATT-TTTTTTT
3965958 TC-A--TTTTTTT
1 TCAATTTTTTTTT
3965968 TC-ATTTTTTTTT
1 TCAATTTTTTTTT
3965980 TCAATTTTTT
1 TCAATTTTTT
3965990 ATGATTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 10 0.34
12 9 0.31
13 8 0.28
14 2 0.07
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (13 bp):
TCAATTTTTTTTT
Found at i:3965996 original size:23 final size:22
Alignment explanation
Indices: 3965951--3965996 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
3965941 TTCTCAATTA
*
3965951 TTTTTTTTCATTTTTTTTCATT
1 TTTTTTTTCATTTTTTATCATT
*
3965973 TTTTTTTTCAATTTTTTATGATT
1 TTTTTTTTC-ATTTTTTATCATT
3965996 T
1 T
3965997 ATTTAAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTTTTTCATTTTTTATCATT
Found at i:3966357 original size:27 final size:26
Alignment explanation
Indices: 3966316--3966390 Score: 68
Period size: 27 Copynumber: 3.0 Consensus size: 26
3966306 TCAGATTCAT
**
3966316 TTATTTTATTTTTTAGTTTTTTTATAA
1 TTATTTTATAGTTTAGTTTTTTT-TAA
*
3966343 TTATTTTATAGTTTA-TAGTTTTTTAA
1 TTATTTTATAGTTTAGT-TTTTTTTAA
*
3966369 TT-TTTTA-AG-TAAGTTTTTTTTA
1 TTATTTTATAGTTTAGTTTTTTTTA
3966391 TAGTTTTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
23 9 0.22
24 3 0.07
25 5 0.12
26 6 0.15
27 18 0.44
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (26 bp):
TTATTTTATAGTTTAGTTTTTTTTAA
Found at i:3970113 original size:89 final size:89
Alignment explanation
Indices: 3969903--3970433 Score: 627
Period size: 89 Copynumber: 6.0 Consensus size: 89
3969893 TCTGTCGTAT
*** * * * *
3969903 CATTAGTCAAATATTTTCAATCATGTCAAAAAGAATCTGATACCCACATGTATCTGTCACATCTT
1 CATTAGTCAAATATTTTTTGTCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
*
3969968 TTG-GGTTCTAAGAAATTTTATTAGG
66 TTGAGTTTC-AAGAAA-TTTATTAGG
* * * * *
3969993 CATTAGTGAAATATTTTCTGTCGTGTCAGAAGGAATCTGATACCCATATGCAGCTGTCACATCTG
1 CATTAGTCAAATATTTTTTGTCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
* *
3970058 TCGAGTTTCAAGAAATTTATTAAG
66 TTGAGTTTCAAGAAATTTATTAGG
* * *
3970082 CATTAGTCAAATATTTTTTGTCGTGTTAGAAGGAATTTGATACCCACATGCATCTGTTACATCTT
1 CATTAGTCAAATATTTTTTGTCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
* * *
3970147 TCGAGTTCCAAGAAATTTATTAAG
66 TTGAGTTTCAAGAAATTTATTAGG
* * * * *
3970171 CATTAGTCAAATATTTTTTGTCGTGTTATAAGGAATCTAATACCCATATGTATCTGTCACATC-T
1 CATTAGTCAAATATTTTTTGTCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
* *
3970235 TTGAGTTCCAAGAATTTTATTAGG
66 TTGAGTTTCAAGAAATTTATTAGG
* * ** ** * * * *
3970259 TATTAGTAAAATATTTTTCATTATGTTAGAAGGAATATAATACCCACATGCATCTATCACATCTT
1 CATTAGTCAAATATTTTTTGTCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
* *
3970324 TTGGGTTTCAAGAATTTTATTAGG
66 TTGAGTTTCAAGAAATTTATTAGG
* *
3970348 CATTAGTCAAATATTTTTCGTTGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
1 CATTAGTCAAATATTTTTTGTCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
*
3970413 TT-AGGTTACAAGAAATTTATT
66 TTGA-GTTTCAAGAAATTTATT
3970434 TTATTAGAAC
Statistics
Matches: 383, Mismatches: 55, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
88 74 0.19
89 242 0.63
90 63 0.16
91 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (89 bp):
CATTAGTCAAATATTTTTTGTCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTT
TTGAGTTTCAAGAAATTTATTAGG
Found at i:3970353 original size:177 final size:177
Alignment explanation
Indices: 3969903--3970433 Score: 661
Period size: 177 Copynumber: 3.0 Consensus size: 177
3969893 TCTGTCGTAT
* * * * * * *
3969903 CATTAGTCAAATA-TTTTCAATCATGTCAAAAAGAATCTGATACCCACATGTATCTGTCACATCT
1 CATTAGTAAAATATTTTTC-ATCATGTTAGAAGGAATATAATACCCACATGCATCTGTCACATCT
* *
3969967 TTTGGG-TTCTAAGAAATTTTATTAGGCATTAGTGAAATATTTTCTGTCGTGTCAGAAGGAATCT
65 TTTGGGTTTC-AAG-AATTTTATTAGGCATTAGTCAAATATTTTTTGTCGTGTCAGAAGGAATCT
* * *
3970031 GATACCCATATGCAGCTGTCACATCTGTCGAGTTTCAAGAAATTTATTAAG
128 GATACCCATATGCATCTGTCACATCT-TTGAGTTACAAGAAATTTATTAAG
* ** * * * *
3970082 CATTAGTCAAATATTTTTTGTCGTGTTAGAAGGAATTTGATACCCACATGCATCTGTTACATCTT
1 CATTAGTAAAATATTTTTCATCATGTTAGAAGGAATATAATACCCACATGCATCTGTCACATCTT
* * * * * * * *
3970147 TCGAGTTCCAAGAAATTTATTAAGCATTAGTCAAATATTTTTTGTCGTGTTATAAGGAATCTAAT
66 TTGGGTTTCAAGAATTTTATTAGGCATTAGTCAAATATTTTTTGTCGTGTCAGAAGGAATCTGAT
* * * *
3970212 ACCCATATGTATCTGTCACATCTTTGAGTTCCAAGAATTTTATTAGG
131 ACCCATATGCATCTGTCACATCTTTGAGTTACAAGAAATTTATTAAG
* * *
3970259 TATTAGTAAAATATTTTTCATTATGTTAGAAGGAATATAATACCCACATGCATCTATCACATCTT
1 CATTAGTAAAATATTTTTCATCATGTTAGAAGGAATATAATACCCACATGCATCTGTCACATCTT
* *
3970324 TTGGGTTTCAAGAATTTTATTAGGCATTAGTCAAATATTTTTCGTTGTGTCAGAAGGAATCTGAT
66 TTGGGTTTCAAGAATTTTATTAGGCATTAGTCAAATATTTTTTGTCGTGTCAGAAGGAATCTGAT
* *
3970389 ACCCACATGCATCTGTCACATCTTTTAGGTTACAAGAAATTTATT
131 ACCCATATGCATCTGTCACATCTTTGA-GTTACAAGAAATTTATT
3970434 TTATTAGAAC
Statistics
Matches: 299, Mismatches: 50, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
177 154 0.52
178 82 0.27
179 57 0.19
180 6 0.02
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (177 bp):
CATTAGTAAAATATTTTTCATCATGTTAGAAGGAATATAATACCCACATGCATCTGTCACATCTT
TTGGGTTTCAAGAATTTTATTAGGCATTAGTCAAATATTTTTTGTCGTGTCAGAAGGAATCTGAT
ACCCATATGCATCTGTCACATCTTTGAGTTACAAGAAATTTATTAAG
Found at i:3970381 original size:266 final size:268
Alignment explanation
Indices: 3969903--3970433 Score: 712
Period size: 266 Copynumber: 2.0 Consensus size: 268
3969893 TCTGTCGTAT
*
3969903 CATTAGTCAAATATTTTCAATCATGTCAAAAAGAATCTGATACCCACATGTATCTGTCACATCTT
1 CATTAGTCAAATATTTTCAATCATGTCAAAAAGAATCTAATACCCACATGTATCTGTCACATCTT
* * * * * *
3969968 TTGGGTTCTAAGAAATTTTATTAGGCATTAGTGAAATATTTTCTGTCGTGTCAGAAGGAATCTGA
66 TTGAGTTCCAAGAAATTTTATTAGGCATTAGTAAAATATTTTCTGTCATGTCAGAAGGAATATAA
* *
3970033 TACCCATATGCAGCTGTCACATCTGTCGAGTTTCAAGAAATTTATTAAGCATTAGTCAAATATTT
131 TACCCACATGCAGCTATCACATCTGTCGAGTTTCAAGAAATTTATTAAGCATTAGTCAAATATTT
* * * * *
3970098 TTTGTCGTGTTAGAAGGAATTTGATACCCACATGCATCTGTTACATCTTTCGA-GTTCCAAGAAA
196 TTCGTCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTTT-GAGGTTACAAGAAA
3970162 TTTATTAAG
260 TTTATTAAG
*** * * * * *
3970171 CATTAGTCAAATATTTTTTGTCGTGTTATAAGGAATCTAATACCCATATGTATCTGTCACATC-T
1 CATTAGTCAAATATTTTCAATCATGTCAAAAAGAATCTAATACCCACATGTATCTGTCACATCTT
* *
3970235 TTGAGTTCCAAG-AATTTTATTAGGTATTAGTAAAATATTTTTCAT-T-ATGTTAGAAGGAATAT
66 TTGAGTTCCAAGAAATTTTATTAGGCATTAGTAAAATA-TTTTC-TGTCATGTCAGAAGGAATAT
* * * * * *
3970297 AATACCCACATGCATCTATCACATCTTTTGGGTTTCAAGAATTTTATTAGGCATTAGTCAAATAT
129 AATACCCACATGCAGCTATCACATCTGTCGAGTTTCAAGAAATTTATTAAGCATTAGTCAAATAT
* *
3970362 TTTTCGTTGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTTTTAGGTTACAAGAA
194 TTTTCGTCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTTTGAGGTTACAAGAA
3970427 ATTTATT
259 ATTTATT
3970434 TTATTAGAAC
Statistics
Matches: 228, Mismatches: 32, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
265 1 0.00
266 155 0.68
267 17 0.07
268 55 0.24
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (268 bp):
CATTAGTCAAATATTTTCAATCATGTCAAAAAGAATCTAATACCCACATGTATCTGTCACATCTT
TTGAGTTCCAAGAAATTTTATTAGGCATTAGTAAAATATTTTCTGTCATGTCAGAAGGAATATAA
TACCCACATGCAGCTATCACATCTGTCGAGTTTCAAGAAATTTATTAAGCATTAGTCAAATATTT
TTCGTCGTGTCAGAAGGAATCTGATACCCACATGCATCTGTCACATCTTTGAGGTTACAAGAAAT
TTATTAAG
Found at i:3972499 original size:2 final size:2
Alignment explanation
Indices: 3972494--3972556 Score: 68
Period size: 2 Copynumber: 35.0 Consensus size: 2
3972484 TTTTTGTTAT
*
3972494 TA TA TA TA TA T- TA TA TA T- TA T- TA TA T- TA AA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3972531 TA TA TA TA TA TA TA T- TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3972557 AAGGGCGTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
1 7 0.13
2 45 0.87
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:3972504 original size:21 final size:21
Alignment explanation
Indices: 3972490--3972555 Score: 100
Period size: 19 Copynumber: 3.2 Consensus size: 21
3972480 ATATTTTTTG
3972490 TTATTATATATATATTATATA
1 TTATTATATATATATTATATA
*
3972511 TTATTATATTAAATATTATATA
1 TTATTATA-TATATATTATATA
3972533 -TA-TATATATATATTATATA
1 TTATTATATATATATTATATA
3972552 TTAT
1 TTAT
3972556 AAAGGGCGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
19 12 0.30
20 6 0.15
21 10 0.25
22 12 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATTATATATATATTATATA
Found at i:3972520 original size:15 final size:14
Alignment explanation
Indices: 3972494--3972556 Score: 87
Period size: 13 Copynumber: 4.6 Consensus size: 14
3972484 TTTTTGTTAT
3972494 TATA-TATATATTA
1 TATATTATATATTA
3972507 TATATTATTATATTA
1 TATATTA-TATATTA
*
3972522 AATATTATATA-TA
1 TATATTATATATTA
3972535 TATA-TATATATTA
1 TATATTATATATTA
3972548 TATATTATA
1 TATATTATA
3972557 AAGGGCGTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
12 6 0.14
13 15 0.34
14 10 0.23
15 13 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TATATTATATATTA
Found at i:3972520 original size:26 final size:26
Alignment explanation
Indices: 3972494--3972556 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 26
3972484 TTTTTGTTAT
3972494 TATATATATATTATATATTAT-TATA
1 TATATATATATTATATATTATATATA
3972519 T-TA-A-ATATTATATA-TATATATA
1 TATATATATATTATATATTATATATA
3972541 TATATTATATATTATA
1 TATA-TATATATTATA
3972557 AAGGGCGTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
21 3 0.09
22 15 0.45
23 3 0.09
24 2 0.06
25 2 0.06
26 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TATATATATATTATATATTATATATA
Found at i:3972753 original size:105 final size:104
Alignment explanation
Indices: 3972553--3972757 Score: 257
Period size: 105 Copynumber: 1.9 Consensus size: 104
3972543 TATTATATAT
* * * * * *
3972553 TATAAAGGGCGTTCTTACGCTACTTTATGACTCTAGACGATGACCTATTTCAGGTCAATCTTTTG
1 TATAAAGAGCGTTCGTACGCCACTCTATGACTCTAGACGATGACCTATTTCAGGCCAAGCTTTTG
* *
3972618 GTGCCCGAATCTACGTAATTAATGCAAAAAAAATATCTTA
66 GTGCCCAAACCTACGTAATTAA-GCAAAAAAAATATCTTA
* * * *
3972658 TATAAAGAGCGTTCGTATGCCACTCTATGATTCTAGATGATGACCTATTTCGGGGCCAAGCTTTT
1 TATAAAGAGCGTTCGTACGCCACTCTATGACTCTAGACGATGACCTATTTC-AGGCCAAGCTTTT
* *
3972723 GGTGCCCAAACCTATGTAATTAACACAAAAAAAAT
65 GGTGCCCAAACCTACGTAATTAA-GCAAAAAAAAT
3972758 GAAATGCCCT
Statistics
Matches: 84, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
105 44 0.52
106 40 0.48
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (104 bp):
TATAAAGAGCGTTCGTACGCCACTCTATGACTCTAGACGATGACCTATTTCAGGCCAAGCTTTTG
GTGCCCAAACCTACGTAATTAAGCAAAAAAAATATCTTA
Found at i:3975642 original size:79 final size:79
Alignment explanation
Indices: 3975554--3976291 Score: 658
Period size: 79 Copynumber: 9.3 Consensus size: 79
3975544 TTATTCATGT
** * *
3975554 TTTTATTTCTAAAATGTCGATTTTCCACT-ATCTGGGATACTCCAACCCCGTTATTTTCGAGGGA
1 TTTTATTTCTAAAACATCGATTTTTCA-TAATCTGGGATACTCCAACCCCGTTATTTTCGAGGGG
* *
3975618 ATACTCCAACTCCGG
65 ATACTCTAACCCCGG
* * * ** * * *
3975633 TTTTATTTCTAGAACATCGATTTTTCACAATCAGAAATACTCCAACCTCGTTATTTTTGAAGGGA
1 TTTTATTTCTAAAACATCGATTTTTCATAATCTGGGATACTCCAACCCCGTTATTTTCGAGGGGA
* *
3975698 TACTCTAACCCTGA
66 TACTCTAACCCCGG
* * * * * * *
3975712 TTTTATTTCTAAAATACCGATTTTTCATCAT-TGAGGATACTCCAA-CCTGTTATTTCCAAGAGG
1 TTTTATTTCTAAAACATCGATTTTTCATAATCTG-GGATACTCCAACCCCGTTATTTTCGAGGGG
*
3975775 ATACTTTAACCCCGG
65 ATACTCTAACCCCGG
* * * * *
3975790 TTTTATTTTTAAAACAAT-GATTTTTTTCATAATC-GAGGATACTCTAGCCCTGTTATTTCCGAG
1 TTTTATTTCTAAAAC-ATCGA--TTTTTCATAATCTG-GGATACTCCAACCCCGTTATTTTCGAG
* *
3975853 GGGATACTCCAACCTCGG
62 GGGATACTCTAACCCCGG
* *
3975871 TTTTATTTCTAAAACATCGATTTTTCATCAT-TGGGGATATTCCAACCCCGTTATTTTCGAGGGG
1 TTTTATTTCTAAAACATCGATTTTTCATAATCT-GGGATACTCCAACCCCGTTATTTTCGAGGGG
* *
3975935 ATACTTTAACCCCGA
65 ATACTCTAACCCCGG
* * * * *
3975950 TTTTATTTCCAAAACA-CAGATTTTTTCACAAT-TGAGGATACTCCAACCTCATTATTTTTGAGG
1 TTTTATTTCTAAAACATC-GA-TTTTTCATAATCTG-GGATACTCCAACCCCGTTATTTTCGAGG
* *
3976013 GGATACTCTAATCCCGA
63 GGATACTCTAACCCCGG
* * * * * **
3976030 TTTTATTT-TCAAAACA-CTGATTTTTTACAA-CTAGGATACTCTAATCCTTTTATTTTCGAGGG
1 TTTTATTTCT-AAAACATC-GATTTTTCATAATCTGGGATACTCCAACCCCGTTATTTTCGAGGG
*
3976092 GATACTCTAACCCCGA
64 GATACTCTAACCCCGG
* * * * *
3976108 TTTTATTTCTAAAACA-CTGATTTTCCATAATC-GAGATACTCTAACCCCATTATTTTCGAGAGG
1 TTTTATTTCTAAAACATC-GATTTTTCATAATCTGGGATACTCCAACCCCGTTATTTTCGAGGGG
* *
3976171 ATGCTCCAACCCCGG
65 ATACTCTAACCCCGG
* * * * * * * *
3976186 CTTTATTTCTAAAACATTGATTTTCCATAATC-GAAGATACTCTAACCTCGTTATTTTTGAGGGA
1 TTTTATTTCTAAAACATCGATTTTTCATAATCTG-GGATACTCCAACCCCGTTATTTTCGAGGGG
*
3976250 ATACTCCAACCCCGG
65 ATACTCTAACCCCGG
3976265 TTTTATTTCTAAAACATCGATTTTTCA
1 TTTTATTTCTAAAACATCGATTTTTCA
3976292 CCATTGGGGA
Statistics
Matches: 541, Mismatches: 99, Indels: 38
0.80 0.15 0.06
Matches are distributed among these distances:
78 170 0.31
79 237 0.44
80 90 0.17
81 44 0.08
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCGATTTTTCATAATCTGGGATACTCCAACCCCGTTATTTTCGAGGGGA
TACTCTAACCCCGG
Found at i:3975876 original size:159 final size:157
Alignment explanation
Indices: 3975554--3976289 Score: 636
Period size: 159 Copynumber: 4.7 Consensus size: 157
3975544 TTATTCATGT
*** * *
3975554 TTTTATTTCTAAAATGTCGATTTTCCA-CTATCTG-GGATACTCCAACCCCGTTATTTTCGAGGG
1 TTTTATTTCTAAAACACCGATTTTTCATC-AT-TGAGGATACTCCAACCCTGTTATTTTCGAGGG
* * * * * * * * *
3975617 AATACTCCAACTCCGGTTTTATTTCTAGAAC-ATCGA-TTTTTCACAATC-AGAAATACTCCAAC
64 GATACTCTAACCCCGATTTTATTTCTAAAACAAT-GATTTTTTCATAATCGAG-GATACTCTACC
* * * *
3975679 CTCGTTATTTTTGAAGGGATACTCTAACCCTGA
127 CT-ATTATTTTCGAGGGGATACTCCAACCC-GA
* * * *
3975712 TTTTATTTCTAAAATACCGATTTTTCATCATTGAGGATACTCCAA-CCTGTTATTTCCAAGAGGA
1 TTTTATTTCTAAAACACCGATTTTTCATCATTGAGGATACTCCAACCCTGTTATTTTCGAGGGGA
* * *
3975776 TACTTTAACCCCGGTTTTATTTTTAAAACAATGATTTTTTTCATAATCGAGGATACTCTAGCCCT
66 TACTCTAACCCCGATTTTATTTCTAAAACAATGA-TTTTTTCATAATCGAGGATACTCTA-CCCT
* * *
3975841 GTTATTTCCGAGGGGATACTCCAACCTCGG
129 ATTATTTTCGAGGGGATACTCCAACC-CGA
* * * *
3975871 TTTTATTTCTAAAACATCGATTTTTCATCATTGGGGATATTCCAACCCCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTTCATCATTGAGGATACTCCAACCCTGTTATTTTCGAGGGGA
* * * * * *
3975936 TACTTTAACCCCGATTTTATTTCCAAAACACA-GATTTTTTCACAATTGAGGATACTCCAACCTC
66 TACTCTAACCCCGATTTTATTTCTAAAACA-ATGATTTTTTCATAATCGAGGATACTCTACCCT-
* *
3976000 ATTATTTTTGAGGGGATACTCTAATCCCGA
129 ATTATTTTCGAGGGGATACTCCAA-CCCGA
* * * * * *
3976030 TTTTATTT-TCAAAACACTGATTTTTTA-CAACT-AGGATACTCTAATCCTTTTATTTTCGAGGG
1 TTTTATTTCT-AAAACACCGATTTTTCATC-ATTGAGGATACTCCAACCCTGTTATTTTCGAGGG
* *
3976092 GATACTCTAACCCCGATTTTATTTCTAAAACACTGA-TTTTCCATAATCGA-GATACTCTAACCC
64 GATACTCTAACCCCGATTTTATTTCTAAAACAATGATTTTTTCATAATCGAGGATACTCT-ACCC
* * * *
3976155 CATTATTTTCGAGAGGATGCTCCAACCCCGG
128 TATTATTTTCGAGGGGATACTCCAA-CCCGA
* ** * * * * * * *
3976186 CTTTATTTCTAAAACATTGATTTTCCATAATCGAAGATACTCTAA-CCTCGTTATTTTTGAGGGA
1 TTTTATTTCTAAAACACCGATTTTTCATCATTGAGGATACTCCAACCCT-GTTATTTTCGAGGGG
* *
3976250 ATACTCCAACCCCGGTTTTATTTCTAAAAC-ATCGATTTTT
65 ATACTCTAACCCCGATTTTATTTCTAAAACAAT-GATTTTT
3976290 CACCATTGGG
Statistics
Matches: 475, Mismatches: 81, Indels: 44
0.79 0.14 0.07
Matches are distributed among these distances:
156 57 0.12
157 110 0.23
158 104 0.22
159 151 0.32
160 52 0.11
161 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (157 bp):
TTTTATTTCTAAAACACCGATTTTTCATCATTGAGGATACTCCAACCCTGTTATTTTCGAGGGGA
TACTCTAACCCCGATTTTATTTCTAAAACAATGATTTTTTCATAATCGAGGATACTCTACCCTAT
TATTTTCGAGGGGATACTCCAACCCGA
Found at i:3977833 original size:18 final size:19
Alignment explanation
Indices: 3977791--3977857 Score: 102
Period size: 18 Copynumber: 3.6 Consensus size: 19
3977781 CCCCATTTAC
* *
3977791 TCTTTTTTTCTTTCTTTCT
1 TCTTTCTTTCTTTCTTTCA
3977810 TCTTTCTTTCTTTCTTTC-
1 TCTTTCTTTCTTTCTTTCA
3977828 TCTTTCTTTCTTTC-TTCA
1 TCTTTCTTTCTTTCTTTCA
3977846 TCTTTCTTTCTT
1 TCTTTCTTTCTT
3977858 CCTTCTTCTC
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
17 3 0.07
18 26 0.57
19 17 0.37
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTTCTTTCTTTCTTTCA
Found at i:3977857 original size:14 final size:13
Alignment explanation
Indices: 3977797--3977858 Score: 76
Period size: 14 Copynumber: 4.8 Consensus size: 13
3977787 TTACTCTTTT
3977797 TTTCTTTCTT-TC
1 TTTCTTTCTTCTC
3977809 -TTCTTTCTT-TC
1 TTTCTTTCTTCTC
*
3977820 TTTCTTTCTCTTTC
1 TTTCTTTCT-TCTC
3977834 TTTCTTTCTTCATC
1 TTTCTTTCTTC-TC
3977848 TTTCTTTCTTC
1 TTTCTTTCTTC
3977859 CTTCTTCTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
11 11 0.24
12 8 0.18
13 2 0.04
14 24 0.53
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTCTTTCTTCTC
Found at i:3977866 original size:14 final size:15
Alignment explanation
Indices: 3977798--3977864 Score: 82
Period size: 15 Copynumber: 4.3 Consensus size: 15
3977788 TACTCTTTTT
*
3977798 TTCTTTCTTTCTTCT
1 TTCTTTCTTTCTTCC
3977813 TTCTTTCTTTCTTTCTC
1 TTCTTTCTTTC-TTC-C
3977830 TTTCTTTCTTTCTT-C
1 -TTCTTTCTTTCTTCC
*
3977845 ATCTTTCTTTCTTCC
1 TTCTTTCTTTCTTCC
3977860 TTCTT
1 TTCTT
3977865 CTCCCTTTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
14 12 0.27
15 17 0.38
16 3 0.07
17 2 0.04
18 11 0.24
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.70
Consensus pattern (15 bp):
TTCTTTCTTTCTTCC
Found at i:3977876 original size:4 final size:4
Alignment explanation
Indices: 3977791--3977857 Score: 86
Period size: 4 Copynumber: 17.0 Consensus size: 4
3977781 CCCCATTTAC
*
3977791 TCTT TTTT TCTT TCTT TC-T TCTT TCTT TCTT TCTT TC-- TCTT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT
3977836 TCTT TCTT CATCTT TCTT TCTT
1 TCTT TCTT --TCTT TCTT TCTT
3977858 CCTTCTTCTC
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
2 2 0.04
3 3 0.05
4 47 0.84
6 4 0.07
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:3978608 original size:16 final size:16
Alignment explanation
Indices: 3978589--3978627 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3978579 AACTAAAAAT
3978589 AACAAAAAAAAGAAAC
1 AACAAAAAAAAGAAAC
* * *
3978605 AACATAAAATAGAAGC
1 AACAAAAAAAAGAAAC
3978621 AACAAAA
1 AACAAAA
3978628 TCATAATTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.74, C:0.13, G:0.08, T:0.05
Consensus pattern (16 bp):
AACAAAAAAAAGAAAC
Found at i:3978877 original size:38 final size:38
Alignment explanation
Indices: 3978835--3978908 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
3978825 CTATACCTAG
*
3978835 AATCAAAACCTCAGTAGAAA-CCCTAAAACAAAACCCAT
1 AATCAAAACCTCAATAGAAATCCC-AAAACAAAACCCAT
* *
3978873 AATCAAAACCTTAATAGAAATCCCAAAATAAAACCC
1 AATCAAAACCTCAATAGAAATCCCAAAACAAAACCC
3978909 TAAGTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 29 0.91
39 3 0.09
ACGTcount: A:0.54, C:0.27, G:0.04, T:0.15
Consensus pattern (38 bp):
AATCAAAACCTCAATAGAAATCCCAAAACAAAACCCAT
Found at i:3978881 original size:26 final size:25
Alignment explanation
Indices: 3978852--3978911 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 25
3978842 ACCTCAGTAG
*
3978852 AAACCCTAAAACAAAACCCATAATCA
1 AAACCCTAAAACAAAACCCAAAAT-A
* * * *
3978878 AAACCTTAATAGAAATCCCAAAATA
1 AAACCCTAAAACAAAACCCAAAATA
3978903 AAACCCTAA
1 AAACCCTAA
3978912 GTTAAAAATC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.15
Consensus pattern (25 bp):
AAACCCTAAAACAAAACCCAAAATA
Found at i:3980477 original size:20 final size:20
Alignment explanation
Indices: 3980426--3980478 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
3980416 ACAACAACTT
* *
3980426 AATGTATCAATGCATAAGTA
1 AATGTATCGATACATAAGTA
*
3980446 AATGTATCGATACATAAGTG
1 AATGTATCGATACATAAGTA
*
3980466 AATGTATTGATAC
1 AATGTATCGATAC
3980479 TGAACCTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATAAGTA
Found at i:3981513 original size:28 final size:28
Alignment explanation
Indices: 3981449--3981507 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
3981439 TATTGTCATC
*
3981449 ATTTAATTGAGAAACAAACCTTGTACAA
1 ATTTAATTGAGAAACAAAACTTGTACAA
3981477 ATTTAATTGAGAAACAAAACTTGTACAA
1 ATTTAATTGAGAAACAAAACTTGTACAA
3981505 ATT
1 ATT
3981508 ACATTGCTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (28 bp):
ATTTAATTGAGAAACAAAACTTGTACAA
Found at i:3983187 original size:204 final size:203
Alignment explanation
Indices: 3982830--3983235 Score: 695
Period size: 204 Copynumber: 2.0 Consensus size: 203
3982820 CGATTATCTC
3982830 AAGATAATCAGTGGCAATTACGAGAAACATCACGATAACTATTACACTTTTTTCCCTTTTTGTGT
1 AAGATAATCAGTGGCAATTACGAGAAACATCACGATAACTATTACACTTTTTTCCCTTTTTGTGT
* *
3982895 AGCTTGGATGAATCATACTCGTGCAATGTCATATGCTTTCAGCATTTTACTAACGCGTTTCCTTC
66 AGCTTGGATGAATCATACTCGTGCAATGTCATATGCTTCCAGCATTTTACTAACACGTTTCCTTC
* * *
3982960 GCATTGACCATTACCGCATTTATGTTTCTAAAATTAGTTTACCAAAAAAGTCATAAAGGCAATGT
131 GCATTGACCATTACCACATTTATGTTTCTAAAATCAGTTTACCAAAAAAATCATAAAGGCAATGT
3983025 TCCGTGTT
196 TCCGTGTT
* *
3983033 AAGATAATCAGTGGCAATTACGAGATACATCACGATGACTATTACACTTTGTTTCCCTTTTTGTG
1 AAGATAATCAGTGGCAATTACGAGAAACATCACGATAACTATTACACTTT-TTTCCCTTTTTGTG
* *
3983098 TAGCTTGGATGAATCATATTCGTGCAATGTCATATGCTTCCAGCATTTTACTAACATGTTTCCTT
65 TAGCTTGGATGAATCATACTCGTGCAATGTCATATGCTTCCAGCATTTTACTAACACGTTTCCTT
* *
3983163 CGCATTGACCATTACCATATTTATGTTTTTAAAATCAGTTTACCAAAAAAATCATAAAGGCAATG
130 CGCATTGACCATTACCACATTTATGTTTCTAAAATCAGTTTACCAAAAAAATCATAAAGGCAATG
*
3983228 TTCTGTGT
195 TTCCGTGT
3983236 CAATATCTTT
Statistics
Matches: 190, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
203 48 0.25
204 142 0.75
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (203 bp):
AAGATAATCAGTGGCAATTACGAGAAACATCACGATAACTATTACACTTTTTTCCCTTTTTGTGT
AGCTTGGATGAATCATACTCGTGCAATGTCATATGCTTCCAGCATTTTACTAACACGTTTCCTTC
GCATTGACCATTACCACATTTATGTTTCTAAAATCAGTTTACCAAAAAAATCATAAAGGCAATGT
TCCGTGTT
Found at i:3989855 original size:21 final size:20
Alignment explanation
Indices: 3989805--3989861 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
3989795 GGCAGTAGCC
3989805 AAAC-TTGTATCGATACACA
1 AAACATTGTATCGATACACA
**
3989824 AAGTA-TGTATCGATACACAA
1 AAACATTGTATCGATACAC-A
3989844 AAACATTGTATCGATACA
1 AAACATTGTATCGATACA
3989862 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 15 0.48
20 4 0.13
21 12 0.39
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (20 bp):
AAACATTGTATCGATACACA
Found at i:3996036 original size:13 final size:13
Alignment explanation
Indices: 3996018--3996055 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
3996008 CATTCTTCTT
3996018 TGTATCGATACAA
1 TGTATCGATACAA
*
3996031 TGTATCGATACAC
1 TGTATCGATACAA
3996044 TGTATCGATACA
1 TGTATCGATACA
3996056 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3997708 original size:23 final size:21
Alignment explanation
Indices: 3997666--3997709 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
3997656 GTTTAATGTT
**
3997666 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
3997687 TTTGCATTGTACTTTGAATTTTA
1 TTTGC-TTG-ACTTTGAATTTTA
3997710 ATCTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:3998633 original size:13 final size:13
Alignment explanation
Indices: 3998615--3998640 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3998605 TACACAAAGT
3998615 ATGTATCGATACA
1 ATGTATCGATACA
3998628 ATGTATCGATACA
1 ATGTATCGATACA
3998641 CAAAAACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3998659 original size:34 final size:32
Alignment explanation
Indices: 3998597--3998661 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
3998587 TAGCCAAACT
**
3998597 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAACATGTATCGATACAA
3998629 TGTATCGATACACAAAAACATTGTATCGATACA
1 TGTATCGATACAC-AAAACA-TGTATCGATACA
3998662 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAACATGTATCGATACAA
Found at i:4002251 original size:13 final size:13
Alignment explanation
Indices: 4002233--4002257 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4002223 TTCAACAATT
4002233 TGTATCGATACAA
1 TGTATCGATACAA
4002246 TGTATCGATACA
1 TGTATCGATACA
4002258 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4002347 original size:13 final size:12
Alignment explanation
Indices: 4002307--4002421 Score: 92
Period size: 13 Copynumber: 10.1 Consensus size: 12
4002297 TGCCAAGAAA
4002307 ATGTATCGATAC
1 ATGTATCGATAC
4002319 AT-TACTC-A-A-
1 ATGTA-TCGATAC
4002328 ATGTATCGATAC
1 ATGTATCGATAC
4002340 ATTGTATCGATAC
1 A-TGTATCGATAC
4002353 AT-TACTC-A-A-
1 ATGTA-TCGATAC
4002362 ATGTATCGATAC
1 ATGTATCGATAC
4002374 ATTGTATCGATAC
1 A-TGTATCGATAC
4002387 AT-TACTC-A-A-
1 ATGTA-TCGATAC
4002396 ATGTATCGATAC
1 ATGTATCGATAC
4002408 ATTGTATCGATAC
1 A-TGTATCGATAC
4002421 A
1 A
4002422 CTGATCTTTG
Statistics
Matches: 85, Mismatches: 0, Indels: 35
0.71 0.00 0.29
Matches are distributed among these distances:
9 12 0.14
10 12 0.14
11 12 0.14
12 13 0.15
13 36 0.42
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:4002351 original size:34 final size:34
Alignment explanation
Indices: 4002308--4002421 Score: 228
Period size: 34 Copynumber: 3.4 Consensus size: 34
4002298 GCCAAGAAAA
4002308 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
4002342 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
4002376 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
4002410 TGTATCGATACA
1 TGTATCGATACA
4002422 CTGATCTTTG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 80 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (34 bp):
TGTATCGATACATTACTCAAATGTATCGATACAT
Found at i:4002475 original size:52 final size:52
Alignment explanation
Indices: 4002430--4002560 Score: 210
Period size: 52 Copynumber: 2.5 Consensus size: 52
4002420 CACTGATCTT
4002430 TGTATCGATACATGCAGGAAAATTTTCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGAAAATTTTCCCAGATGTATCGATACACTATGAAA
* *
4002482 TGTATCGATACATGCA-GACAAATTTGCCCAGATGTATCGATATACTATGAAA
1 TGTATCGATACATGCAGGA-AAATTTTCCCAGATGTATCGATACACTATGAAA
**
4002534 TGTATCGATACATGCAGGCGAATTTTC
1 TGTATCGATACATGCAGGAAAATTTTC
4002561 ATATCTCGAG
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
51 2 0.03
52 69 0.96
53 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTTCCCAGATGTATCGATACACTATGAAA
Found at i:4004718 original size:24 final size:26
Alignment explanation
Indices: 4004691--4004744 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
4004681 TCAAAATTTT
4004691 ATTCAT-C-GGGGACACTCCAACCCC
1 ATTCATCCAGGGGACACTCCAACCCC
*
4004715 ATTCTTCCGAGGGGACACTCCAACCCC
1 ATTCATCC-AGGGGACACTCCAACCCC
4004742 ATT
1 ATT
4004745 TTCAACCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 1 0.04
27 20 0.77
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (26 bp):
ATTCATCCAGGGGACACTCCAACCCC
Found at i:4008583 original size:25 final size:25
Alignment explanation
Indices: 4008545--4008592 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
4008535 TACTTTTAAT
*
4008545 TTTTTGATACTTAATTATAATTCCTA
1 TTTTTGATAATTAA-TATAATTCCTA
*
4008571 TTTTTGA-AATTAATATTATTCC
1 TTTTTGATAATTAATATAATTCC
4008593 AATTCAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 5 0.25
26 7 0.35
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTTTGATAATTAATATAATTCCTA
Found at i:4017755 original size:52 final size:52
Alignment explanation
Indices: 4017622--4017762 Score: 230
Period size: 52 Copynumber: 2.7 Consensus size: 52
4017612 TGAAAAGTTA
4017622 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
4017674 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
**
4017726 CTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
4017763 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:4017769 original size:13 final size:13
Alignment explanation
Indices: 4017751--4017775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4017741 CAAAAATCAG
4017751 TGTATCGATACAA
1 TGTATCGATACAA
4017764 TGTATCGATACA
1 TGTATCGATACA
4017776 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4017858 original size:13 final size:13
Alignment explanation
Indices: 4017840--4017864 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4017830 CAAAAAAATA
4017840 TGTATCGATACAT
1 TGTATCGATACAT
4017853 TGTATCGATACA
1 TGTATCGATACA
4017865 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4017860 original size:33 final size:33
Alignment explanation
Indices: 4017818--4017884 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4017808 AGTAGCTTAA
4017818 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
4017851 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
4017884 A
1 A
4017885 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:4017963 original size:21 final size:21
Alignment explanation
Indices: 4017922--4017963 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4017912 GTTGGGACCT
*
4017922 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
4017943 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
4017964 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:4020066 original size:25 final size:25
Alignment explanation
Indices: 4020028--4020075 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
4020018 TACTTTTAAT
*
4020028 TTTTTGATACTTAATTATAATTCCTA
1 TTTTTGATAATTAA-TATAATTCCTA
*
4020054 TTTTTGA-AATTAATATTATTCC
1 TTTTTGATAATTAATATAATTCC
4020076 AATTCAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 5 0.25
26 7 0.35
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTTTGATAATTAATATAATTCCTA
Found at i:4021601 original size:13 final size:13
Alignment explanation
Indices: 4021583--4021620 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
4021573 CATTCTTCTT
4021583 TGTATCGATACAA
1 TGTATCGATACAA
*
4021596 TGTATCGATACAC
1 TGTATCGATACAA
4021609 TGTATCGATACA
1 TGTATCGATACA
4021621 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4023273 original size:23 final size:21
Alignment explanation
Indices: 4023231--4023274 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
4023221 GTTTAATGTT
**
4023231 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
4023252 TTTGCATTGTACTTTGAATTTTA
1 TTTGC-TTG-ACTTTGAATTTTA
4023275 ATCTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:4024198 original size:13 final size:13
Alignment explanation
Indices: 4024180--4024205 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4024170 TACACAAAGT
4024180 ATGTATCGATACA
1 ATGTATCGATACA
4024193 ATGTATCGATACA
1 ATGTATCGATACA
4024206 CAAAAACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4024224 original size:34 final size:32
Alignment explanation
Indices: 4024162--4024226 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
4024152 TAGCCAAACT
**
4024162 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAACATGTATCGATACAA
4024194 TGTATCGATACACAAAAACATTGTATCGATACA
1 TGTATCGATACAC-AAAACA-TGTATCGATACA
4024227 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAACATGTATCGATACAA
Found at i:4027816 original size:13 final size:13
Alignment explanation
Indices: 4027798--4027822 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4027788 TTCAACAATT
4027798 TGTATCGATACAA
1 TGTATCGATACAA
4027811 TGTATCGATACA
1 TGTATCGATACA
4027823 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4027912 original size:13 final size:12
Alignment explanation
Indices: 4027872--4027986 Score: 92
Period size: 13 Copynumber: 10.1 Consensus size: 12
4027862 TGCCAAGAAA
4027872 ATGTATCGATAC
1 ATGTATCGATAC
4027884 AT-TACTC-A-A-
1 ATGTA-TCGATAC
4027893 ATGTATCGATAC
1 ATGTATCGATAC
4027905 ATTGTATCGATAC
1 A-TGTATCGATAC
4027918 AT-TACTC-A-A-
1 ATGTA-TCGATAC
4027927 ATGTATCGATAC
1 ATGTATCGATAC
4027939 ATTGTATCGATAC
1 A-TGTATCGATAC
4027952 AT-TACTC-A-A-
1 ATGTA-TCGATAC
4027961 ATGTATCGATAC
1 ATGTATCGATAC
4027973 ATTGTATCGATAC
1 A-TGTATCGATAC
4027986 A
1 A
4027987 CTGATCTTTG
Statistics
Matches: 85, Mismatches: 0, Indels: 35
0.71 0.00 0.29
Matches are distributed among these distances:
9 12 0.14
10 12 0.14
11 12 0.14
12 13 0.15
13 36 0.42
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:4027916 original size:34 final size:34
Alignment explanation
Indices: 4027873--4027986 Score: 228
Period size: 34 Copynumber: 3.4 Consensus size: 34
4027863 GCCAAGAAAA
4027873 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
4027907 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
4027941 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
4027975 TGTATCGATACA
1 TGTATCGATACA
4027987 CTGATCTTTG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 80 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (34 bp):
TGTATCGATACATTACTCAAATGTATCGATACAT
Found at i:4028040 original size:52 final size:52
Alignment explanation
Indices: 4027995--4028125 Score: 210
Period size: 52 Copynumber: 2.5 Consensus size: 52
4027985 CACTGATCTT
4027995 TGTATCGATACATGCAGGAAAATTTTCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGAAAATTTTCCCAGATGTATCGATACACTATGAAA
* *
4028047 TGTATCGATACATGCA-GACAAATTTGCCCAGATGTATCGATATACTATGAAA
1 TGTATCGATACATGCAGGA-AAATTTTCCCAGATGTATCGATACACTATGAAA
**
4028099 TGTATCGATACATGCAGGCGAATTTTC
1 TGTATCGATACATGCAGGAAAATTTTC
4028126 ATATCTCGAG
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
51 2 0.03
52 69 0.96
53 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTTCCCAGATGTATCGATACACTATGAAA
Found at i:4030283 original size:24 final size:26
Alignment explanation
Indices: 4030256--4030309 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
4030246 TCAAAATTTT
4030256 ATTCAT-C-GGGGACACTCCAACCCC
1 ATTCATCCAGGGGACACTCCAACCCC
*
4030280 ATTCTTCCGAGGGGACACTCCAACCCC
1 ATTCATCC-AGGGGACACTCCAACCCC
4030307 ATT
1 ATT
4030310 TTCAACCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 1 0.04
27 20 0.77
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (26 bp):
ATTCATCCAGGGGACACTCCAACCCC
Done.